-- dump date 20120504_140037 -- class Genbank::misc_feature -- table misc_feature_note -- id note 398527000001 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398527000002 active site 398527000003 ATP binding site [chemical binding]; other site 398527000004 substrate binding site [chemical binding]; other site 398527000005 activation loop (A-loop); other site 398527000006 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 398527000007 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 398527000008 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 398527000009 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 398527000010 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 398527000011 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527000012 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 398527000013 phosphopeptide binding site; other site 398527000014 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 398527000015 phosphopeptide binding site; other site 398527000016 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 398527000017 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527000018 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527000019 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 398527000020 PPIC-type PPIASE domain; Region: Rotamase; cl08278 398527000021 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527000022 ligand binding site [chemical binding]; other site 398527000023 flexible hinge region; other site 398527000024 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527000025 ligand binding site [chemical binding]; other site 398527000026 flexible hinge region; other site 398527000027 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 398527000028 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 398527000029 putative active site [active] 398527000030 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 398527000031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527000032 Walker A/P-loop; other site 398527000033 ATP binding site [chemical binding]; other site 398527000034 Q-loop/lid; other site 398527000035 ABC transporter signature motif; other site 398527000036 Walker B; other site 398527000037 D-loop; other site 398527000038 H-loop/switch region; other site 398527000039 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 398527000040 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527000041 Walker A motif; other site 398527000042 ATP binding site [chemical binding]; other site 398527000043 Walker B motif; other site 398527000044 arginine finger; other site 398527000045 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 398527000046 active site 398527000047 Protein phosphatase 2C; Region: PP2C; pfam00481 398527000048 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 398527000049 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527000050 Helix-turn-helix domains; Region: HTH; cl00088 398527000051 The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold; Region: PBP2_BlaA; cd08487 398527000052 putative dimerization interface [polypeptide binding]; other site 398527000053 putative substrate binding pocket [chemical binding]; other site 398527000054 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527000055 Predicted membrane protein [Function unknown]; Region: COG3918 398527000056 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 398527000057 gating phenylalanine in ion channel; other site 398527000058 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527000059 Helix-turn-helix domains; Region: HTH; cl00088 398527000060 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527000061 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 398527000062 active site 398527000063 citrylCoA binding site [chemical binding]; other site 398527000064 oxalacetate binding site [chemical binding]; other site 398527000065 coenzyme A binding site [chemical binding]; other site 398527000066 catalytic triad [active] 398527000067 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527000068 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527000069 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 398527000070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000071 putative substrate translocation pore; other site 398527000072 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000073 putative substrate translocation pore; other site 398527000074 Response regulator receiver domain; Region: Response_reg; pfam00072 398527000075 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527000076 active site 398527000077 phosphorylation site [posttranslational modification] 398527000078 intermolecular recognition site; other site 398527000079 dimerization interface [polypeptide binding]; other site 398527000080 circadian clock protein KaiC; Reviewed; Region: PRK09302 398527000081 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527000082 ATP binding site [chemical binding]; other site 398527000083 Walker A motif; other site 398527000084 Walker B motif; other site 398527000085 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527000086 Walker A motif; other site 398527000087 ATP binding site [chemical binding]; other site 398527000088 Walker B motif; other site 398527000089 Tannase and feruloyl esterase; Region: Tannase; pfam07519 398527000090 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527000091 eyelet of channel; other site 398527000092 trimer interface [polypeptide binding]; other site 398527000093 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 398527000094 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000095 putative substrate translocation pore; other site 398527000096 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527000097 Helix-turn-helix domains; Region: HTH; cl00088 398527000098 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 398527000099 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527000100 substrate binding site [chemical binding]; other site 398527000101 oxyanion hole (OAH) forming residues; other site 398527000102 trimer interface [polypeptide binding]; other site 398527000103 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527000104 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 398527000105 NAD(P) binding site [chemical binding]; other site 398527000106 catalytic residues [active] 398527000107 feruloyl-CoA synthase; Reviewed; Region: PRK08180 398527000108 AMP-binding enzyme; Region: AMP-binding; cl15778 398527000109 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527000110 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 398527000111 active site lid residues [active] 398527000112 substrate binding pocket [chemical binding]; other site 398527000113 catalytic residues [active] 398527000114 substrate-Mg2+ binding site; other site 398527000115 aspartate-rich region 1; other site 398527000116 aspartate-rich region 2; other site 398527000117 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527000118 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 398527000119 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 398527000120 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527000121 binding surface 398527000122 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398527000123 TPR motif; other site 398527000124 TPR repeat; Region: TPR_11; pfam13414 398527000125 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527000126 binding surface 398527000127 TPR motif; other site 398527000128 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398527000129 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 398527000130 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398527000131 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 398527000132 Walker A/P-loop; other site 398527000133 ATP binding site [chemical binding]; other site 398527000134 Q-loop/lid; other site 398527000135 ABC transporter signature motif; other site 398527000136 Walker B; other site 398527000137 D-loop; other site 398527000138 H-loop/switch region; other site 398527000139 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398527000140 NMT1-like family; Region: NMT1_2; cl15260 398527000141 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 398527000142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527000143 active site 398527000144 phosphorylation site [posttranslational modification] 398527000145 intermolecular recognition site; other site 398527000146 dimerization interface [polypeptide binding]; other site 398527000147 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527000148 DNA binding site [nucleotide binding] 398527000149 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398527000150 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527000151 dimer interface [polypeptide binding]; other site 398527000152 phosphorylation site [posttranslational modification] 398527000153 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527000154 ATP binding site [chemical binding]; other site 398527000155 Mg2+ binding site [ion binding]; other site 398527000156 G-X-G motif; other site 398527000157 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398527000158 NMT1-like family; Region: NMT1_2; cl15260 398527000159 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398527000160 sensor protein QseC; Provisional; Region: PRK10337 398527000161 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527000162 dimer interface [polypeptide binding]; other site 398527000163 phosphorylation site [posttranslational modification] 398527000164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527000165 ATP binding site [chemical binding]; other site 398527000166 Mg2+ binding site [ion binding]; other site 398527000167 G-X-G motif; other site 398527000168 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 398527000169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527000170 active site 398527000171 phosphorylation site [posttranslational modification] 398527000172 intermolecular recognition site; other site 398527000173 dimerization interface [polypeptide binding]; other site 398527000174 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527000175 DNA binding site [nucleotide binding] 398527000176 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527000177 trimer interface [polypeptide binding]; other site 398527000178 eyelet of channel; other site 398527000179 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527000180 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 398527000181 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 398527000182 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527000183 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 398527000184 putative ADP-binding pocket [chemical binding]; other site 398527000185 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 398527000186 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398527000187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000188 tyrosine kinase; Provisional; Region: PRK11519 398527000189 Chain length determinant protein; Region: Wzz; cl15801 398527000190 Chain length determinant protein; Region: Wzz; cl15801 398527000191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527000192 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398527000193 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398527000194 active site 398527000195 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 398527000196 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398527000197 SLBB domain; Region: SLBB; pfam10531 398527000198 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 398527000199 SLBB domain; Region: SLBB; pfam10531 398527000200 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 398527000201 Bacterial sugar transferase; Region: Bac_transf; cl00939 398527000202 Phospholipid methyltransferase; Region: PEMT; cl00763 398527000203 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 398527000204 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398527000205 putative active site [active] 398527000206 metal binding site [ion binding]; metal-binding site 398527000207 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 398527000208 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 398527000209 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527000210 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527000211 MbtH-like protein; Region: MbtH; cl01279 398527000212 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 398527000213 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398527000214 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398527000215 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398527000216 Walker A/P-loop; other site 398527000217 ATP binding site [chemical binding]; other site 398527000218 Q-loop/lid; other site 398527000219 ABC transporter signature motif; other site 398527000220 Walker B; other site 398527000221 D-loop; other site 398527000222 H-loop/switch region; other site 398527000223 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398527000224 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 398527000225 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 398527000226 ABC-ATPase subunit interface; other site 398527000227 dimer interface [polypeptide binding]; other site 398527000228 putative PBP binding regions; other site 398527000229 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 398527000230 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 398527000231 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 398527000232 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 398527000233 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 398527000234 siderophore binding site; other site 398527000235 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 398527000236 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 398527000237 Walker A/P-loop; other site 398527000238 ATP binding site [chemical binding]; other site 398527000239 Q-loop/lid; other site 398527000240 ABC transporter signature motif; other site 398527000241 Walker B; other site 398527000242 D-loop; other site 398527000243 H-loop/switch region; other site 398527000244 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 398527000245 AMP-binding enzyme; Region: AMP-binding; cl15778 398527000246 AMP-binding enzyme; Region: AMP-binding; cl15778 398527000247 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527000248 peptide synthase; Provisional; Region: PRK12316 398527000249 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 398527000250 AMP-binding enzyme; Region: AMP-binding; cl15778 398527000251 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527000252 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 398527000253 AMP-binding enzyme; Region: AMP-binding; cl15778 398527000254 AMP-binding enzyme; Region: AMP-binding; cl15778 398527000255 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527000256 peptide synthase; Provisional; Region: PRK12467 398527000257 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 398527000258 AMP-binding enzyme; Region: AMP-binding; cl15778 398527000259 AMP-binding enzyme; Region: AMP-binding; cl15778 398527000260 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527000261 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 398527000262 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527000263 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 398527000264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000265 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 398527000266 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398527000267 N-terminal plug; other site 398527000268 ligand-binding site [chemical binding]; other site 398527000269 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 398527000270 catalytic site [active] 398527000271 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000272 putative substrate translocation pore; other site 398527000273 Helix-turn-helix domains; Region: HTH; cl00088 398527000274 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527000275 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 398527000276 putative effector binding pocket; other site 398527000277 putative dimerization interface [polypeptide binding]; other site 398527000278 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398527000279 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398527000280 N-terminal plug; other site 398527000281 ligand-binding site [chemical binding]; other site 398527000282 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 398527000283 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527000284 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527000285 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000286 D-galactonate transporter; Region: 2A0114; TIGR00893 398527000287 putative substrate translocation pore; other site 398527000288 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 398527000289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000290 CoA-ligase; Region: Ligase_CoA; cl02894 398527000291 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527000292 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527000293 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527000294 active site 398527000295 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527000296 Helix-turn-helix domains; Region: HTH; cl00088 398527000297 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 398527000298 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 398527000299 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527000300 Helix-turn-helix domains; Region: HTH; cl00088 398527000301 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 398527000302 putative dimerization interface [polypeptide binding]; other site 398527000303 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 398527000304 Citrate transporter; Region: CitMHS; pfam03600 398527000305 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 398527000306 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527000307 Helix-turn-helix domains; Region: HTH; cl00088 398527000308 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527000309 putative effector binding pocket; other site 398527000310 dimerization interface [polypeptide binding]; other site 398527000311 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398527000312 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 398527000313 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 398527000314 FMN binding site [chemical binding]; other site 398527000315 active site 398527000316 substrate binding site [chemical binding]; other site 398527000317 catalytic residue [active] 398527000318 Helix-turn-helix domains; Region: HTH; cl00088 398527000319 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527000320 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 398527000321 putative effector binding pocket; other site 398527000322 putative dimerization interface [polypeptide binding]; other site 398527000323 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527000324 Helix-turn-helix domains; Region: HTH; cl00088 398527000325 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398527000326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000328 NAD(P) binding site [chemical binding]; other site 398527000329 active site 398527000330 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527000331 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527000332 DNA-binding site [nucleotide binding]; DNA binding site 398527000333 FCD domain; Region: FCD; cl11656 398527000334 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000335 D-galactonate transporter; Region: 2A0114; TIGR00893 398527000336 putative substrate translocation pore; other site 398527000337 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 398527000338 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 398527000339 active site 398527000340 tetramer interface [polypeptide binding]; other site 398527000341 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 398527000342 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398527000343 putative active site [active] 398527000344 catalytic residue [active] 398527000345 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000346 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527000347 putative substrate translocation pore; other site 398527000348 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000349 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527000350 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 398527000351 trimer interface [polypeptide binding]; other site 398527000352 active site 398527000353 dimer interface [polypeptide binding]; other site 398527000354 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527000355 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000356 putative substrate translocation pore; other site 398527000357 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527000358 Helix-turn-helix domains; Region: HTH; cl00088 398527000359 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527000360 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398527000361 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 398527000362 NAD(P) binding site [chemical binding]; other site 398527000363 active site 398527000364 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 398527000365 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 398527000366 dimer interface [polypeptide binding]; other site 398527000367 active site 398527000368 NmrA-like family; Region: NmrA; pfam05368 398527000369 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 398527000370 NADP binding site [chemical binding]; other site 398527000371 active site 398527000372 regulatory binding site [polypeptide binding]; other site 398527000373 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527000374 Helix-turn-helix domains; Region: HTH; cl00088 398527000375 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527000376 putative effector binding pocket; other site 398527000377 dimerization interface [polypeptide binding]; other site 398527000378 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 398527000379 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527000380 Cache domain; Region: Cache_2; cl07034 398527000381 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527000382 dimer interface [polypeptide binding]; other site 398527000383 putative CheW interface [polypeptide binding]; other site 398527000384 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527000385 eyelet of channel; other site 398527000386 trimer interface [polypeptide binding]; other site 398527000387 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 398527000388 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 398527000389 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 398527000390 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527000391 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527000392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000393 NAD(P) binding site [chemical binding]; other site 398527000394 active site 398527000395 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527000396 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527000397 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527000398 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398527000399 Helix-turn-helix domains; Region: HTH; cl00088 398527000400 The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold; Region: PBP2_HcaR; cd08450 398527000401 putative dimerization interface [polypeptide binding]; other site 398527000402 putative substrate binding pocket [chemical binding]; other site 398527000403 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 398527000404 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 398527000405 active site 398527000406 allantoate amidohydrolase; Reviewed; Region: PRK12893 398527000407 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398527000408 active site 398527000409 metal binding site [ion binding]; metal-binding site 398527000410 dimer interface [polypeptide binding]; other site 398527000411 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527000412 Coenzyme A binding pocket [chemical binding]; other site 398527000413 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 398527000414 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 398527000415 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 398527000416 DNA binding site [nucleotide binding] 398527000417 active site 398527000418 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 398527000419 Tyrosine kinase, catalytic domain; Region: TyrKc; smart00219 398527000420 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527000421 active site 398527000422 ATP binding site [chemical binding]; other site 398527000423 substrate binding site [chemical binding]; other site 398527000424 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527000425 activation loop (A-loop); other site 398527000426 activation loop (A-loop); other site 398527000427 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 398527000428 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527000429 ligand binding site [chemical binding]; other site 398527000430 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 398527000431 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398527000432 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398527000433 putative active site [active] 398527000434 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527000435 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398527000436 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527000437 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398527000438 Helix-turn-helix domains; Region: HTH; cl00088 398527000439 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 398527000440 OsmC-like protein; Region: OsmC; cl00767 398527000441 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 398527000442 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527000443 Helix-turn-helix domains; Region: HTH; cl00088 398527000444 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527000445 putative effector binding pocket; other site 398527000446 dimerization interface [polypeptide binding]; other site 398527000447 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 398527000448 FMN binding site [chemical binding]; other site 398527000449 substrate binding site [chemical binding]; other site 398527000450 putative catalytic residue [active] 398527000451 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 398527000452 active site 1 [active] 398527000453 dimer interface [polypeptide binding]; other site 398527000454 hexamer interface [polypeptide binding]; other site 398527000455 active site 2 [active] 398527000456 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527000457 classical (c) SDRs; Region: SDR_c; cd05233 398527000458 NAD(P) binding site [chemical binding]; other site 398527000459 active site 398527000460 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398527000461 active site 398527000462 nucleophile elbow; other site 398527000463 Patatin phospholipase; Region: DUF3734; pfam12536 398527000464 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398527000465 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527000466 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527000467 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 398527000468 ligand binding site [chemical binding]; other site 398527000469 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398527000470 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527000471 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 398527000472 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 398527000473 tetramer interface [polypeptide binding]; other site 398527000474 active site 398527000475 Mg2+/Mn2+ binding site [ion binding]; other site 398527000476 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398527000477 Helix-turn-helix domains; Region: HTH; cl00088 398527000478 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 398527000479 dimerization interface [polypeptide binding]; other site 398527000480 substrate binding pocket [chemical binding]; other site 398527000481 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 398527000482 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398527000483 active site 398527000484 catalytic triad [active] 398527000485 dimer interface [polypeptide binding]; other site 398527000486 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527000487 Helix-turn-helix domains; Region: HTH; cl00088 398527000488 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527000489 dimerization interface [polypeptide binding]; other site 398527000490 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 398527000491 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527000492 ligand binding site [chemical binding]; other site 398527000493 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527000494 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527000495 Walker A/P-loop; other site 398527000496 ATP binding site [chemical binding]; other site 398527000497 Q-loop/lid; other site 398527000498 ABC transporter signature motif; other site 398527000499 Walker B; other site 398527000500 D-loop; other site 398527000501 H-loop/switch region; other site 398527000502 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527000503 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527000504 TM-ABC transporter signature motif; other site 398527000505 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398527000506 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 398527000507 substrate binding site [chemical binding]; other site 398527000508 dimer interface [polypeptide binding]; other site 398527000509 ATP binding site [chemical binding]; other site 398527000510 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 398527000511 active site 398527000512 CHASE2 domain; Region: CHASE2; cl01732 398527000513 Peptidase family M48; Region: Peptidase_M48; cl12018 398527000514 sensor protein QseC; Provisional; Region: PRK10337 398527000515 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527000516 dimer interface [polypeptide binding]; other site 398527000517 phosphorylation site [posttranslational modification] 398527000518 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527000519 ATP binding site [chemical binding]; other site 398527000520 Mg2+ binding site [ion binding]; other site 398527000521 G-X-G motif; other site 398527000522 Helix-turn-helix domains; Region: HTH; cl00088 398527000523 WHG domain; Region: WHG; pfam13305 398527000524 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527000525 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527000526 Walker A/P-loop; other site 398527000527 ATP binding site [chemical binding]; other site 398527000528 Q-loop/lid; other site 398527000529 ABC transporter signature motif; other site 398527000530 Walker B; other site 398527000531 D-loop; other site 398527000532 H-loop/switch region; other site 398527000533 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527000534 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527000535 TM-ABC transporter signature motif; other site 398527000536 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 398527000537 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527000538 putative ligand binding site [chemical binding]; other site 398527000539 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398527000540 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 398527000541 putative active site pocket [active] 398527000542 metal binding site [ion binding]; metal-binding site 398527000543 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398527000544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000545 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 398527000546 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 398527000547 Protein of unknown function (DUF993); Region: DUF993; pfam06187 398527000548 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 398527000549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000550 NAD(P) binding site [chemical binding]; other site 398527000551 active site 398527000552 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527000553 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527000554 active site 398527000555 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 398527000556 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527000557 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527000558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527000559 Helix-turn-helix domains; Region: HTH; cl00088 398527000560 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 398527000561 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527000562 NAD(P) binding site [chemical binding]; other site 398527000563 catalytic residues [active] 398527000564 choline dehydrogenase; Validated; Region: PRK02106 398527000565 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527000566 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 398527000567 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527000568 ligand binding site [chemical binding]; other site 398527000569 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527000570 TM-ABC transporter signature motif; other site 398527000571 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527000572 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527000573 Walker A/P-loop; other site 398527000574 ATP binding site [chemical binding]; other site 398527000575 Q-loop/lid; other site 398527000576 ABC transporter signature motif; other site 398527000577 Walker B; other site 398527000578 D-loop; other site 398527000579 H-loop/switch region; other site 398527000580 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527000581 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527000582 TM-ABC transporter signature motif; other site 398527000583 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 398527000584 Ligand binding site [chemical binding]; other site 398527000585 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398527000586 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 398527000587 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 398527000588 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398527000589 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527000590 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527000591 active site 398527000592 catalytic tetrad [active] 398527000593 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527000594 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398527000595 active site residue [active] 398527000596 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398527000597 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 398527000598 dimer interface [polypeptide binding]; other site 398527000599 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398527000600 catalytic triad [active] 398527000601 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 398527000602 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527000603 Helix-turn-helix domains; Region: HTH; cl00088 398527000604 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527000605 dimerization interface [polypeptide binding]; other site 398527000606 substrate binding pocket [chemical binding]; other site 398527000607 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398527000608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000609 Isochorismatase family; Region: Isochorismatase; pfam00857 398527000610 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 398527000611 catalytic triad [active] 398527000612 conserved cis-peptide bond; other site 398527000613 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398527000614 hydrophobic ligand binding site; other site 398527000615 SET domain; Region: SET; cl02566 398527000616 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 398527000617 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 398527000618 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 398527000619 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 398527000620 Walker A/P-loop; other site 398527000621 ATP binding site [chemical binding]; other site 398527000622 Q-loop/lid; other site 398527000623 ABC transporter signature motif; other site 398527000624 Walker B; other site 398527000625 D-loop; other site 398527000626 H-loop/switch region; other site 398527000627 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527000628 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 398527000629 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398527000630 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527000631 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527000632 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 398527000633 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 398527000634 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398527000635 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527000636 catalytic loop [active] 398527000637 iron binding site [ion binding]; other site 398527000638 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527000639 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 398527000640 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 398527000641 potential catalytic triad [active] 398527000642 conserved cys residue [active] 398527000643 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 398527000644 YCII-related domain; Region: YCII; cl00999 398527000645 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398527000646 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 398527000647 active site 398527000648 coenzyme A binding site [chemical binding]; other site 398527000649 citrylCoA binding site [chemical binding]; other site 398527000650 dimer interface [polypeptide binding]; other site 398527000651 Citrate synthase; Region: Citrate_synt; pfam00285 398527000652 oxalacetate/citrate binding site [chemical binding]; other site 398527000653 catalytic triad [active] 398527000654 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527000655 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398527000656 active site 398527000657 metal binding site [ion binding]; metal-binding site 398527000658 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000659 D-galactonate transporter; Region: 2A0114; TIGR00893 398527000660 putative substrate translocation pore; other site 398527000661 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527000662 classical (c) SDRs; Region: SDR_c; cd05233 398527000663 NAD(P) binding site [chemical binding]; other site 398527000664 active site 398527000665 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398527000666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000667 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 398527000668 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398527000669 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527000670 motif II; other site 398527000671 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527000672 Phasin protein; Region: Phasin_2; cl11491 398527000673 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 398527000674 nudix motif; other site 398527000675 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 398527000676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000677 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 398527000678 active site 398527000679 homodimer interface [polypeptide binding]; other site 398527000680 homotetramer interface [polypeptide binding]; other site 398527000681 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398527000682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000683 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527000684 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398527000685 conserved cys residue [active] 398527000686 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527000687 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527000688 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 398527000689 dimerization interface [polypeptide binding]; other site 398527000690 ligand binding site [chemical binding]; other site 398527000691 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 398527000692 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 398527000693 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527000694 Walker A/P-loop; other site 398527000695 ATP binding site [chemical binding]; other site 398527000696 Q-loop/lid; other site 398527000697 ABC transporter signature motif; other site 398527000698 Walker B; other site 398527000699 D-loop; other site 398527000700 H-loop/switch region; other site 398527000701 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527000702 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 398527000703 TM-ABC transporter signature motif; other site 398527000704 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 398527000705 TM-ABC transporter signature motif; other site 398527000706 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 398527000707 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 398527000708 putative ligand binding site [chemical binding]; other site 398527000709 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 398527000710 Predicted esterase [General function prediction only]; Region: COG0627 398527000711 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527000712 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527000713 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527000714 DNA-binding site [nucleotide binding]; DNA binding site 398527000715 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527000716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527000717 homodimer interface [polypeptide binding]; other site 398527000718 catalytic residue [active] 398527000719 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527000720 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398527000721 active site 398527000722 metal binding site [ion binding]; metal-binding site 398527000723 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398527000724 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 398527000725 FMN-binding pocket [chemical binding]; other site 398527000726 flavin binding motif; other site 398527000727 phosphate binding motif [ion binding]; other site 398527000728 beta-alpha-beta structure motif; other site 398527000729 NAD binding pocket [chemical binding]; other site 398527000730 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527000731 catalytic loop [active] 398527000732 iron binding site [ion binding]; other site 398527000733 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 398527000734 iron-sulfur cluster [ion binding]; other site 398527000735 [2Fe-2S] cluster binding site [ion binding]; other site 398527000736 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398527000737 hydrophobic ligand binding site; other site 398527000738 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398527000739 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 398527000740 [2Fe-2S] cluster binding site [ion binding]; other site 398527000741 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 398527000742 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 398527000743 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527000744 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 398527000745 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527000746 inhibitor-cofactor binding pocket; inhibition site 398527000747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527000748 catalytic residue [active] 398527000749 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398527000750 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527000751 tetrameric interface [polypeptide binding]; other site 398527000752 NAD binding site [chemical binding]; other site 398527000753 catalytic residues [active] 398527000754 phenylhydantoinase; Validated; Region: PRK08323 398527000755 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 398527000756 tetramer interface [polypeptide binding]; other site 398527000757 active site 398527000758 FO synthase subunit 1; Reviewed; Region: cofG; PRK06245 398527000759 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527000760 FeS/SAM binding site; other site 398527000761 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit; Region: F420_cofH; TIGR03551 398527000762 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527000763 FeS/SAM binding site; other site 398527000764 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 398527000765 phosphate binding site [ion binding]; other site 398527000766 dimer interface [polypeptide binding]; other site 398527000767 substrate binding site [chemical binding]; other site 398527000768 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527000769 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 398527000770 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 398527000771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000772 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 398527000773 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 398527000774 F420-dependent oxidoreductase, CPS_4043 family; Region: F420_CPS_4043; TIGR03842 398527000775 allantoate amidohydrolase; Reviewed; Region: PRK12893 398527000776 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398527000777 active site 398527000778 metal binding site [ion binding]; metal-binding site 398527000779 dimer interface [polypeptide binding]; other site 398527000780 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 398527000781 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 398527000782 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398527000783 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 398527000784 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 398527000785 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 398527000786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527000787 Helix-turn-helix domains; Region: HTH; cl00088 398527000788 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527000789 putative effector binding pocket; other site 398527000790 dimerization interface [polypeptide binding]; other site 398527000791 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398527000792 DDE superfamily endonuclease; Region: DDE_4; cl15789 398527000793 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527000794 trimer interface [polypeptide binding]; other site 398527000795 eyelet of channel; other site 398527000796 Phosphoesterase family; Region: Phosphoesterase; cl15450 398527000797 BNR repeat-like domain; Region: BNR_2; pfam13088 398527000798 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 398527000799 Asp-box motif; other site 398527000800 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 398527000801 High-affinity nickel-transport protein; Region: NicO; cl00964 398527000802 TIGR03440 family protein; Region: unchr_TIGR03440 398527000803 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 398527000804 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 398527000805 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527000806 ligand binding site [chemical binding]; other site 398527000807 flexible hinge region; other site 398527000808 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 398527000809 putative switch regulator; other site 398527000810 non-specific DNA interactions [nucleotide binding]; other site 398527000811 DNA binding site [nucleotide binding] 398527000812 sequence specific DNA binding site [nucleotide binding]; other site 398527000813 putative cAMP binding site [chemical binding]; other site 398527000814 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527000815 Ligand Binding Site [chemical binding]; other site 398527000816 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527000817 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527000818 DNA-binding site [nucleotide binding]; DNA binding site 398527000819 FCD domain; Region: FCD; cl11656 398527000820 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527000821 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527000822 non-specific DNA binding site [nucleotide binding]; other site 398527000823 salt bridge; other site 398527000824 sequence-specific DNA binding site [nucleotide binding]; other site 398527000825 Autoinducer binding domain; Region: Autoind_bind; pfam03472 398527000826 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 398527000827 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527000828 DNA binding residues [nucleotide binding] 398527000829 dimerization interface [polypeptide binding]; other site 398527000830 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 398527000831 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 398527000832 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527000833 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527000834 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527000835 Walker A/P-loop; other site 398527000836 ATP binding site [chemical binding]; other site 398527000837 Q-loop/lid; other site 398527000838 ABC transporter signature motif; other site 398527000839 Walker B; other site 398527000840 D-loop; other site 398527000841 H-loop/switch region; other site 398527000842 TOBE domain; Region: TOBE_2; cl01440 398527000843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527000844 dimer interface [polypeptide binding]; other site 398527000845 conserved gate region; other site 398527000846 putative PBP binding loops; other site 398527000847 ABC-ATPase subunit interface; other site 398527000848 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527000849 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527000850 dimer interface [polypeptide binding]; other site 398527000851 conserved gate region; other site 398527000852 putative PBP binding loops; other site 398527000853 ABC-ATPase subunit interface; other site 398527000854 Dehydratase family; Region: ILVD_EDD; cl00340 398527000855 short chain dehydrogenase; Provisional; Region: PRK12827 398527000856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000857 NAD(P) binding site [chemical binding]; other site 398527000858 active site 398527000859 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 398527000860 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 398527000861 trimer interface [polypeptide binding]; other site 398527000862 active site 398527000863 substrate binding site [chemical binding]; other site 398527000864 CoA binding site [chemical binding]; other site 398527000865 Cupin domain; Region: Cupin_2; cl09118 398527000866 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527000867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527000868 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 398527000869 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527000870 trimer interface [polypeptide binding]; other site 398527000871 eyelet of channel; other site 398527000872 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 398527000873 stationary phase growth adaptation protein; Provisional; Region: PRK09717 398527000874 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 398527000875 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527000876 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 398527000877 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 398527000878 active site 398527000879 metal-binding site 398527000880 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000881 putative transporter; Provisional; Region: PRK10504 398527000882 putative substrate translocation pore; other site 398527000883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527000884 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 398527000885 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398527000886 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 398527000887 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 398527000888 protein binding site [polypeptide binding]; other site 398527000889 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527000890 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398527000891 active site 398527000892 metal binding site [ion binding]; metal-binding site 398527000893 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 398527000894 Phosphate transporter family; Region: PHO4; cl00396 398527000895 Phosphate transporter family; Region: PHO4; cl00396 398527000896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527000897 NAD(P) binding site [chemical binding]; other site 398527000898 active site 398527000899 CHAD domain; Region: CHAD; cl10506 398527000900 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398527000901 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 398527000902 active site residue [active] 398527000903 EamA-like transporter family; Region: EamA; cl01037 398527000904 EamA-like transporter family; Region: EamA; cl01037 398527000905 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 398527000906 GTP cyclohydrolase I; Provisional; Region: PLN03044 398527000907 active site 398527000908 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527000909 Helix-turn-helix domains; Region: HTH; cl00088 398527000910 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 398527000911 substrate binding pocket [chemical binding]; other site 398527000912 dimerization interface [polypeptide binding]; other site 398527000913 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527000914 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527000915 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 398527000916 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 398527000917 tetramer interface [polypeptide binding]; other site 398527000918 active site 398527000919 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 398527000920 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527000921 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527000922 ABC-2 type transporter; Region: ABC2_membrane; cl11417 398527000923 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 398527000924 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 398527000925 Walker A/P-loop; other site 398527000926 ATP binding site [chemical binding]; other site 398527000927 Q-loop/lid; other site 398527000928 ABC transporter signature motif; other site 398527000929 Walker B; other site 398527000930 D-loop; other site 398527000931 H-loop/switch region; other site 398527000932 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 398527000933 putative carbohydrate binding site [chemical binding]; other site 398527000934 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 398527000935 putative homodimer interface [polypeptide binding]; other site 398527000936 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 398527000937 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527000938 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 398527000939 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 398527000940 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 398527000941 active site 398527000942 homodimer interface [polypeptide binding]; other site 398527000943 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527000944 Helix-turn-helix domains; Region: HTH; cl00088 398527000945 ApbE family; Region: ApbE; cl00643 398527000946 Amino acid synthesis; Region: AA_synth; pfam06684 398527000947 Amino acid synthesis; Region: AA_synth; pfam06684 398527000948 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527000949 TM-ABC transporter signature motif; other site 398527000950 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527000951 TM-ABC transporter signature motif; other site 398527000952 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527000953 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527000954 Walker A/P-loop; other site 398527000955 ATP binding site [chemical binding]; other site 398527000956 Q-loop/lid; other site 398527000957 ABC transporter signature motif; other site 398527000958 Walker B; other site 398527000959 D-loop; other site 398527000960 H-loop/switch region; other site 398527000961 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527000962 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527000963 Walker A/P-loop; other site 398527000964 ATP binding site [chemical binding]; other site 398527000965 Q-loop/lid; other site 398527000966 ABC transporter signature motif; other site 398527000967 Walker B; other site 398527000968 D-loop; other site 398527000969 H-loop/switch region; other site 398527000970 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 398527000971 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527000972 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 398527000973 active site 398527000974 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527000975 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398527000976 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527000977 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527000978 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527000979 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398527000980 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527000981 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527000982 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398527000983 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527000984 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 398527000985 putative ligand binding site [chemical binding]; other site 398527000986 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 398527000987 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527000988 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527000989 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 398527000990 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 398527000991 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527000992 S-adenosylmethionine binding site [chemical binding]; other site 398527000993 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 398527000994 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527000995 inhibitor-cofactor binding pocket; inhibition site 398527000996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527000997 catalytic residue [active] 398527000998 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527000999 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527001000 DNA-binding site [nucleotide binding]; DNA binding site 398527001001 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527001002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527001003 homodimer interface [polypeptide binding]; other site 398527001004 catalytic residue [active] 398527001005 LysE type translocator; Region: LysE; cl00565 398527001006 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 398527001007 FAD binding pocket [chemical binding]; other site 398527001008 conserved FAD binding motif [chemical binding]; other site 398527001009 phosphate binding motif [ion binding]; other site 398527001010 beta-alpha-beta structure motif; other site 398527001011 NAD binding pocket [chemical binding]; other site 398527001012 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 398527001013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001014 NAD(P) binding site [chemical binding]; other site 398527001015 active site 398527001016 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 398527001017 NmrA (a transcriptional regulator) and triphenylmethane reductase (TMR) like proteins, subgroup 1, atypical (a) SDRs; Region: NmrA_TMR_like_1_SDR_a; cd05231 398527001018 putative NADP binding site [chemical binding]; other site 398527001019 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527001020 Helix-turn-helix domains; Region: HTH; cl00088 398527001021 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527001022 classical (c) SDRs; Region: SDR_c; cd05233 398527001023 NAD(P) binding site [chemical binding]; other site 398527001024 active site 398527001025 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 398527001026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001027 NAD(P) binding site [chemical binding]; other site 398527001028 active site 398527001029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527001030 DNA-binding site [nucleotide binding]; DNA binding site 398527001031 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527001032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527001033 homodimer interface [polypeptide binding]; other site 398527001034 catalytic residue [active] 398527001035 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527001036 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527001037 Coenzyme A binding pocket [chemical binding]; other site 398527001038 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527001039 Helix-turn-helix domains; Region: HTH; cl00088 398527001040 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527001041 putative effector binding pocket; other site 398527001042 dimerization interface [polypeptide binding]; other site 398527001043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001044 NmrA-like family; Region: NmrA; pfam05368 398527001045 NAD(P) binding site [chemical binding]; other site 398527001046 active site 398527001047 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527001048 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398527001049 active site 398527001050 metal binding site [ion binding]; metal-binding site 398527001051 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527001052 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 398527001053 nucleophilic elbow; other site 398527001054 catalytic triad; other site 398527001055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527001056 Helix-turn-helix domains; Region: HTH; cl00088 398527001057 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527001058 dimerization interface [polypeptide binding]; other site 398527001059 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398527001060 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527001061 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 398527001062 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 398527001063 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 398527001064 active site 398527001065 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527001066 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 398527001067 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527001068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001069 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398527001070 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 398527001071 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 398527001072 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 398527001073 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527001074 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 398527001075 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 398527001076 metal ion-dependent adhesion site (MIDAS); other site 398527001077 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 398527001078 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 398527001079 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 398527001080 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527001081 PYR/PP interface [polypeptide binding]; other site 398527001082 dimer interface [polypeptide binding]; other site 398527001083 TPP binding site [chemical binding]; other site 398527001084 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527001085 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 398527001086 TPP-binding site; other site 398527001087 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527001088 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 398527001089 NAD(P) binding site [chemical binding]; other site 398527001090 catalytic residues [active] 398527001091 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398527001092 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 398527001093 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 398527001094 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 398527001095 Walker A/P-loop; other site 398527001096 ATP binding site [chemical binding]; other site 398527001097 Q-loop/lid; other site 398527001098 ABC transporter signature motif; other site 398527001099 Walker B; other site 398527001100 D-loop; other site 398527001101 H-loop/switch region; other site 398527001102 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 398527001103 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527001104 substrate binding pocket [chemical binding]; other site 398527001105 membrane-bound complex binding site; other site 398527001106 hinge residues; other site 398527001107 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527001108 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527001109 DNA-binding site [nucleotide binding]; DNA binding site 398527001110 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527001111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527001112 homodimer interface [polypeptide binding]; other site 398527001113 catalytic residue [active] 398527001114 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527001115 Helix-turn-helix domains; Region: HTH; cl00088 398527001116 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527001117 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 398527001118 Helix-turn-helix domains; Region: HTH; cl00088 398527001119 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527001120 choline dehydrogenase; Validated; Region: PRK02106 398527001121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001122 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527001123 shikimate transporter; Provisional; Region: PRK09952 398527001124 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001125 putative substrate translocation pore; other site 398527001126 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 398527001127 putative active site [active] 398527001128 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 398527001129 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527001130 Helix-turn-helix domains; Region: HTH; cl00088 398527001131 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527001132 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 398527001133 putative catalytic cysteine [active] 398527001134 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 398527001135 AMP-binding enzyme; Region: AMP-binding; cl15778 398527001136 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527001137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001138 D-galactonate transporter; Region: 2A0114; TIGR00893 398527001139 putative substrate translocation pore; other site 398527001140 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527001141 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527001142 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398527001143 Sulfate transporter family; Region: Sulfate_transp; cl15842 398527001144 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398527001145 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527001146 active site 398527001147 phosphorylation site [posttranslational modification] 398527001148 intermolecular recognition site; other site 398527001149 dimerization interface [polypeptide binding]; other site 398527001150 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527001151 DNA binding site [nucleotide binding] 398527001152 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398527001153 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527001154 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527001155 dimer interface [polypeptide binding]; other site 398527001156 phosphorylation site [posttranslational modification] 398527001157 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527001158 ATP binding site [chemical binding]; other site 398527001159 G-X-G motif; other site 398527001160 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527001161 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527001162 Response regulator receiver domain; Region: Response_reg; pfam00072 398527001163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527001164 active site 398527001165 phosphorylation site [posttranslational modification] 398527001166 intermolecular recognition site; other site 398527001167 dimerization interface [polypeptide binding]; other site 398527001168 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527001169 dimerization interface [polypeptide binding]; other site 398527001170 putative DNA binding site [nucleotide binding]; other site 398527001171 putative Zn2+ binding site [ion binding]; other site 398527001172 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 398527001173 active site 398527001174 FMN binding site [chemical binding]; other site 398527001175 substrate binding site [chemical binding]; other site 398527001176 homotetramer interface [polypeptide binding]; other site 398527001177 catalytic residue [active] 398527001178 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398527001179 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 398527001180 DNA binding residues [nucleotide binding] 398527001181 RNA polymerase sigma factor; Provisional; Region: PRK12537 398527001182 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527001183 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527001184 DNA binding residues [nucleotide binding] 398527001185 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 398527001186 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 398527001187 Phasin protein; Region: Phasin_2; cl11491 398527001188 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 398527001189 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 398527001190 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 398527001191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 398527001192 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 398527001193 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 398527001194 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 398527001195 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 398527001196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 398527001197 Uncharacterized conserved protein [Function unknown]; Region: COG2308 398527001198 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 398527001199 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 398527001200 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398527001201 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 398527001202 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 398527001203 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527001204 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527001205 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527001206 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527001207 substrate binding pocket [chemical binding]; other site 398527001208 membrane-bound complex binding site; other site 398527001209 hinge residues; other site 398527001210 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527001211 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001212 dimer interface [polypeptide binding]; other site 398527001213 conserved gate region; other site 398527001214 putative PBP binding loops; other site 398527001215 ABC-ATPase subunit interface; other site 398527001216 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398527001217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527001218 Walker A/P-loop; other site 398527001219 ATP binding site [chemical binding]; other site 398527001220 Q-loop/lid; other site 398527001221 ABC transporter signature motif; other site 398527001222 Walker B; other site 398527001223 D-loop; other site 398527001224 H-loop/switch region; other site 398527001225 Arginase family; Region: Arginase; cl00306 398527001226 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527001227 Helix-turn-helix domains; Region: HTH; cl00088 398527001228 Helix-turn-helix domains; Region: HTH; cl00088 398527001229 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 398527001230 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527001231 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527001232 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527001233 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001234 putative substrate translocation pore; other site 398527001235 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001236 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527001237 putative acyltransferase; Provisional; Region: PRK05790 398527001238 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398527001239 dimer interface [polypeptide binding]; other site 398527001240 active site 398527001241 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 398527001242 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 398527001243 Nucleoside recognition; Region: Gate; cl00486 398527001244 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 398527001245 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 398527001246 active site 398527001247 catalytic motif [active] 398527001248 Zn binding site [ion binding]; other site 398527001249 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 398527001250 active site 398527001251 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 398527001252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001253 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398527001254 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527001255 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398527001256 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527001257 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 398527001258 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 398527001259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001260 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 398527001261 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527001262 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001263 dimer interface [polypeptide binding]; other site 398527001264 conserved gate region; other site 398527001265 putative PBP binding loops; other site 398527001266 ABC-ATPase subunit interface; other site 398527001267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001268 dimer interface [polypeptide binding]; other site 398527001269 conserved gate region; other site 398527001270 putative PBP binding loops; other site 398527001271 ABC-ATPase subunit interface; other site 398527001272 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527001273 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527001274 Walker A/P-loop; other site 398527001275 ATP binding site [chemical binding]; other site 398527001276 Q-loop/lid; other site 398527001277 ABC transporter signature motif; other site 398527001278 Walker B; other site 398527001279 D-loop; other site 398527001280 H-loop/switch region; other site 398527001281 TOBE domain; Region: TOBE_2; cl01440 398527001282 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527001283 Helix-turn-helix domains; Region: HTH; cl00088 398527001284 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527001285 outer membrane porin, OprD family; Region: OprD; pfam03573 398527001286 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 398527001287 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527001288 Walker A/P-loop; other site 398527001289 ATP binding site [chemical binding]; other site 398527001290 Q-loop/lid; other site 398527001291 ABC transporter signature motif; other site 398527001292 Walker B; other site 398527001293 D-loop; other site 398527001294 H-loop/switch region; other site 398527001295 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527001296 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 398527001297 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527001298 Walker A/P-loop; other site 398527001299 ATP binding site [chemical binding]; other site 398527001300 Q-loop/lid; other site 398527001301 ABC transporter signature motif; other site 398527001302 Walker B; other site 398527001303 D-loop; other site 398527001304 H-loop/switch region; other site 398527001305 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527001306 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398527001307 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398527001308 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001309 dimer interface [polypeptide binding]; other site 398527001310 conserved gate region; other site 398527001311 putative PBP binding loops; other site 398527001312 ABC-ATPase subunit interface; other site 398527001313 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 398527001314 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001315 dimer interface [polypeptide binding]; other site 398527001316 conserved gate region; other site 398527001317 putative PBP binding loops; other site 398527001318 ABC-ATPase subunit interface; other site 398527001319 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 398527001320 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 398527001321 peptide binding site [polypeptide binding]; other site 398527001322 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 398527001323 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527001324 non-specific DNA binding site [nucleotide binding]; other site 398527001325 salt bridge; other site 398527001326 sequence-specific DNA binding site [nucleotide binding]; other site 398527001327 Cupin domain; Region: Cupin_2; cl09118 398527001328 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 398527001329 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001330 putative substrate translocation pore; other site 398527001331 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 398527001332 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527001333 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527001334 DNA-binding site [nucleotide binding]; DNA binding site 398527001335 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527001336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527001337 homodimer interface [polypeptide binding]; other site 398527001338 catalytic residue [active] 398527001339 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 398527001340 IHF dimer interface [polypeptide binding]; other site 398527001341 IHF - DNA interface [nucleotide binding]; other site 398527001342 Uncharacterized conserved protein [Function unknown]; Region: COG2308 398527001343 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 398527001344 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 398527001345 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398527001346 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 398527001347 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 398527001348 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 398527001349 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 398527001350 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527001351 trimer interface [polypeptide binding]; other site 398527001352 eyelet of channel; other site 398527001353 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 398527001354 PA2301 is an uncharacterized Pseudomonas aeruginosa protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's...; Region: PA2301; cd04939 398527001355 putative deacylase active site [active] 398527001356 Cache domain; Region: Cache_2; cl07034 398527001357 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527001358 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527001359 dimer interface [polypeptide binding]; other site 398527001360 putative CheW interface [polypeptide binding]; other site 398527001361 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 398527001362 active site 398527001363 phosphorylation site [posttranslational modification] 398527001364 intermolecular recognition site; other site 398527001365 dimerization interface [polypeptide binding]; other site 398527001366 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398527001367 Sulfate transporter family; Region: Sulfate_transp; cl15842 398527001368 Sulfate transporter family; Region: Sulfate_transp; cl15842 398527001369 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 398527001370 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 398527001371 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398527001372 FAD binding domain; Region: FAD_binding_4; pfam01565 398527001373 Berberine and berberine like; Region: BBE; pfam08031 398527001374 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 398527001375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001376 NAD(P) binding site [chemical binding]; other site 398527001377 active site 398527001378 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 398527001379 putative active site [active] 398527001380 putative metal binding site [ion binding]; other site 398527001381 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 398527001382 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527001383 ATP binding site [chemical binding]; other site 398527001384 putative Mg++ binding site [ion binding]; other site 398527001385 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527001386 nucleotide binding region [chemical binding]; other site 398527001387 ATP-binding site [chemical binding]; other site 398527001388 DEAD/H associated; Region: DEAD_assoc; pfam08494 398527001389 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398527001390 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 398527001391 active site 398527001392 catalytic triad [active] 398527001393 dimer interface [polypeptide binding]; other site 398527001394 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 398527001395 Protein of unknown function, DUF488; Region: DUF488; cl01246 398527001396 H-NS histone family; Region: Histone_HNS; pfam00816 398527001397 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527001398 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398527001399 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 398527001400 putative active site [active] 398527001401 catalytic site [active] 398527001402 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 398527001403 putative active site [active] 398527001404 catalytic site [active] 398527001405 NMT1-like family; Region: NMT1_2; cl15260 398527001406 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 398527001407 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398527001408 Sulfatase; Region: Sulfatase; cl10460 398527001409 Sulfatase; Region: Sulfatase; cl10460 398527001410 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527001411 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527001412 active site 398527001413 phosphorylation site [posttranslational modification] 398527001414 intermolecular recognition site; other site 398527001415 dimerization interface [polypeptide binding]; other site 398527001416 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527001417 DNA binding residues [nucleotide binding] 398527001418 dimerization interface [polypeptide binding]; other site 398527001419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 398527001420 Cache domain; Region: Cache_2; cl07034 398527001421 Histidine kinase; Region: HisKA_3; pfam07730 398527001422 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527001423 ATP binding site [chemical binding]; other site 398527001424 Mg2+ binding site [ion binding]; other site 398527001425 G-X-G motif; other site 398527001426 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 398527001427 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527001428 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398527001429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001431 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 398527001432 Domain of unknown function (DUF802); Region: DUF802; pfam05650 398527001433 hypothetical protein; Provisional; Region: PRK09040 398527001434 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527001435 ligand binding site [chemical binding]; other site 398527001436 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 398527001437 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 398527001438 Integral membrane protein TerC family; Region: TerC; cl10468 398527001439 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 398527001440 Helix-turn-helix domains; Region: HTH; cl00088 398527001441 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527001442 dimerization interface [polypeptide binding]; other site 398527001443 tellurium resistance terB-like protein; Region: terB_like; cl11965 398527001444 metal binding site [ion binding]; metal-binding site 398527001445 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527001446 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398527001447 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527001448 dimerization interface [polypeptide binding]; other site 398527001449 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527001450 dimer interface [polypeptide binding]; other site 398527001451 phosphorylation site [posttranslational modification] 398527001452 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527001453 ATP binding site [chemical binding]; other site 398527001454 Mg2+ binding site [ion binding]; other site 398527001455 G-X-G motif; other site 398527001456 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398527001457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527001458 active site 398527001459 phosphorylation site [posttranslational modification] 398527001460 intermolecular recognition site; other site 398527001461 dimerization interface [polypeptide binding]; other site 398527001462 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527001463 DNA binding site [nucleotide binding] 398527001464 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398527001465 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 398527001466 catalytic residues [active] 398527001467 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 398527001468 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 398527001469 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527001470 motif II; other site 398527001471 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 398527001472 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398527001473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527001474 active site 398527001475 phosphorylation site [posttranslational modification] 398527001476 intermolecular recognition site; other site 398527001477 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527001478 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527001479 ATP binding site [chemical binding]; other site 398527001480 G-X-G motif; other site 398527001481 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398527001482 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398527001483 active site 398527001484 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 398527001485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001486 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398527001487 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 398527001488 NMT1-like family; Region: NMT1_2; cl15260 398527001489 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 398527001490 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527001491 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398527001492 conserved cys residue [active] 398527001493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527001494 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527001495 Helix-turn-helix domains; Region: HTH; cl00088 398527001496 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 398527001497 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 398527001498 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398527001499 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398527001500 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 398527001501 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527001502 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527001503 DNA-binding site [nucleotide binding]; DNA binding site 398527001504 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527001505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527001506 homodimer interface [polypeptide binding]; other site 398527001507 catalytic residue [active] 398527001508 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527001509 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398527001510 tetramerization interface [polypeptide binding]; other site 398527001511 NAD(P) binding site [chemical binding]; other site 398527001512 catalytic residues [active] 398527001513 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 398527001514 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527001515 inhibitor-cofactor binding pocket; inhibition site 398527001516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527001517 catalytic residue [active] 398527001518 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527001519 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527001520 DNA-binding site [nucleotide binding]; DNA binding site 398527001521 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527001522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527001523 homodimer interface [polypeptide binding]; other site 398527001524 catalytic residue [active] 398527001525 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 398527001526 EamA-like transporter family; Region: EamA; cl01037 398527001527 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 398527001528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001529 dimer interface [polypeptide binding]; other site 398527001530 conserved gate region; other site 398527001531 ABC-ATPase subunit interface; other site 398527001532 NMT1-like family; Region: NMT1_2; cl15260 398527001533 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 398527001534 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 398527001535 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 398527001536 Walker A/P-loop; other site 398527001537 ATP binding site [chemical binding]; other site 398527001538 Q-loop/lid; other site 398527001539 ABC transporter signature motif; other site 398527001540 Walker B; other site 398527001541 D-loop; other site 398527001542 H-loop/switch region; other site 398527001543 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 398527001544 putative active site [active] 398527001545 Zn binding site [ion binding]; other site 398527001546 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527001547 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527001548 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 398527001549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001550 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398527001551 Cation efflux family; Region: Cation_efflux; cl00316 398527001552 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527001553 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527001554 active site 398527001555 catalytic tetrad [active] 398527001556 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 398527001557 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527001558 transcriptional regulator; Provisional; Region: PRK10632 398527001559 Helix-turn-helix domains; Region: HTH; cl00088 398527001560 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 398527001561 putative effector binding pocket; other site 398527001562 putative dimerization interface [polypeptide binding]; other site 398527001563 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527001564 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398527001565 substrate binding pocket [chemical binding]; other site 398527001566 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 398527001567 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527001568 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527001569 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 398527001570 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527001571 NMT1-like family; Region: NMT1_2; cl15260 398527001572 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 398527001573 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 398527001574 active site 398527001575 non-prolyl cis peptide bond; other site 398527001576 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 398527001577 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 398527001578 Walker A/P-loop; other site 398527001579 ATP binding site [chemical binding]; other site 398527001580 Q-loop/lid; other site 398527001581 ABC transporter signature motif; other site 398527001582 Walker B; other site 398527001583 D-loop; other site 398527001584 H-loop/switch region; other site 398527001585 NIL domain; Region: NIL; cl09633 398527001586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001587 dimer interface [polypeptide binding]; other site 398527001588 conserved gate region; other site 398527001589 ABC-ATPase subunit interface; other site 398527001590 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 398527001591 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 398527001592 Flavin binding site [chemical binding]; other site 398527001593 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 398527001594 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398527001595 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 398527001596 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 398527001597 putative inner membrane protein; Provisional; Region: PRK11099 398527001598 Sulphur transport; Region: Sulf_transp; cl01018 398527001599 putative inner membrane protein; Provisional; Region: PRK11099 398527001600 Sulphur transport; Region: Sulf_transp; cl01018 398527001601 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398527001602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527001603 Coenzyme A binding pocket [chemical binding]; other site 398527001604 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527001605 non-specific DNA binding site [nucleotide binding]; other site 398527001606 salt bridge; other site 398527001607 sequence-specific DNA binding site [nucleotide binding]; other site 398527001608 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527001609 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 398527001610 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527001611 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 398527001612 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 398527001613 dimer interface [polypeptide binding]; other site 398527001614 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527001615 metal binding site [ion binding]; metal-binding site 398527001616 DoxX; Region: DoxX; cl00976 398527001617 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001618 putative substrate translocation pore; other site 398527001619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001620 citrate-proton symporter; Provisional; Region: PRK15075 398527001621 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001622 putative substrate translocation pore; other site 398527001623 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398527001624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527001625 active site 398527001626 phosphorylation site [posttranslational modification] 398527001627 intermolecular recognition site; other site 398527001628 dimerization interface [polypeptide binding]; other site 398527001629 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527001630 DNA binding site [nucleotide binding] 398527001631 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398527001632 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398527001633 inhibitor site; inhibition site 398527001634 active site 398527001635 dimer interface [polypeptide binding]; other site 398527001636 catalytic residue [active] 398527001637 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 398527001638 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398527001639 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527001640 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398527001641 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527001642 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 398527001643 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 398527001644 PAS fold; Region: PAS_4; pfam08448 398527001645 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527001646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527001647 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398527001648 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 398527001649 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 398527001650 dimer interface [polypeptide binding]; other site 398527001651 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 398527001652 active site 398527001653 Fe binding site [ion binding]; other site 398527001654 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 398527001655 active site 398527001656 trimer interface [polypeptide binding]; other site 398527001657 dimer interface [polypeptide binding]; other site 398527001658 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 398527001659 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398527001660 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398527001661 shikimate binding site; other site 398527001662 NAD(P) binding site [chemical binding]; other site 398527001663 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001664 D-galactonate transporter; Region: 2A0114; TIGR00893 398527001665 putative substrate translocation pore; other site 398527001666 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001667 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527001668 Helix-turn-helix domains; Region: HTH; cl00088 398527001669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001670 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398527001671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 398527001672 Anti-sigma-K factor rskA; Region: RskA; pfam10099 398527001673 RNA polymerase sigma factor; Provisional; Region: PRK12514 398527001674 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527001675 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527001676 DNA binding residues [nucleotide binding] 398527001677 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398527001678 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398527001679 inhibitor site; inhibition site 398527001680 active site 398527001681 dimer interface [polypeptide binding]; other site 398527001682 catalytic residue [active] 398527001683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527001684 Helix-turn-helix domains; Region: HTH; cl00088 398527001685 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 398527001686 putative dimerization interface [polypeptide binding]; other site 398527001687 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 398527001688 Transglycosylase; Region: Transgly; cl07896 398527001689 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527001690 Helix-turn-helix domains; Region: HTH; cl00088 398527001691 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 398527001692 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 398527001693 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527001694 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527001695 Walker A/P-loop; other site 398527001696 ATP binding site [chemical binding]; other site 398527001697 Q-loop/lid; other site 398527001698 ABC transporter signature motif; other site 398527001699 Walker B; other site 398527001700 D-loop; other site 398527001701 H-loop/switch region; other site 398527001702 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527001703 TM-ABC transporter signature motif; other site 398527001704 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398527001705 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 398527001706 ligand binding site [chemical binding]; other site 398527001707 Flagellar regulator YcgR; Region: YcgR; pfam07317 398527001708 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 398527001709 PilZ domain; Region: PilZ; cl01260 398527001710 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527001711 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527001712 DNA binding site [nucleotide binding] 398527001713 domain linker motif; other site 398527001714 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 398527001715 dimerization interface [polypeptide binding]; other site 398527001716 ligand binding site [chemical binding]; other site 398527001717 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 398527001718 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 398527001719 Walker A/P-loop; other site 398527001720 ATP binding site [chemical binding]; other site 398527001721 Q-loop/lid; other site 398527001722 ABC transporter signature motif; other site 398527001723 Walker B; other site 398527001724 D-loop; other site 398527001725 H-loop/switch region; other site 398527001726 TOBE domain; Region: TOBE_2; cl01440 398527001727 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 398527001728 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 398527001729 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 398527001730 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398527001731 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527001732 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 398527001733 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001734 dimer interface [polypeptide binding]; other site 398527001735 conserved gate region; other site 398527001736 putative PBP binding loops; other site 398527001737 ABC-ATPase subunit interface; other site 398527001738 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398527001739 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001740 dimer interface [polypeptide binding]; other site 398527001741 conserved gate region; other site 398527001742 putative PBP binding loops; other site 398527001743 ABC-ATPase subunit interface; other site 398527001744 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 398527001745 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 398527001746 Gram-negative bacterial tonB protein; Region: TonB; cl10048 398527001747 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 398527001748 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398527001749 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 398527001750 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398527001751 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398527001752 N-terminal plug; other site 398527001753 ligand-binding site [chemical binding]; other site 398527001754 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527001755 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527001756 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527001757 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398527001758 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527001759 ligand binding site [chemical binding]; other site 398527001760 flexible hinge region; other site 398527001761 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 398527001762 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398527001763 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 398527001764 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 398527001765 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527001766 ligand binding site [chemical binding]; other site 398527001767 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527001768 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 398527001769 catalytic residues [active] 398527001770 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 398527001771 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398527001772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527001773 active site 398527001774 phosphorylation site [posttranslational modification] 398527001775 intermolecular recognition site; other site 398527001776 dimerization interface [polypeptide binding]; other site 398527001777 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527001778 DNA binding site [nucleotide binding] 398527001779 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527001780 dimerization interface [polypeptide binding]; other site 398527001781 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398527001782 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527001783 ATP binding site [chemical binding]; other site 398527001784 Mg2+ binding site [ion binding]; other site 398527001785 G-X-G motif; other site 398527001786 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527001787 ligand binding site [chemical binding]; other site 398527001788 flexible hinge region; other site 398527001789 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 398527001790 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527001791 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398527001792 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 398527001793 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398527001794 active site 398527001795 metal binding site [ion binding]; metal-binding site 398527001796 Flp/Fap pilin component; Region: Flp_Fap; cl01585 398527001797 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 398527001798 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398527001799 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 398527001800 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398527001801 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 398527001802 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 398527001803 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 398527001804 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 398527001805 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 398527001806 ATP binding site [chemical binding]; other site 398527001807 Walker A motif; other site 398527001808 hexamer interface [polypeptide binding]; other site 398527001809 Walker B motif; other site 398527001810 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 398527001811 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 398527001812 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 398527001813 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 398527001814 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 398527001815 TadE-like protein; Region: TadE; cl10688 398527001816 TadE-like protein; Region: TadE; cl10688 398527001817 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 398527001818 metal ion-dependent adhesion site (MIDAS); other site 398527001819 Phospholipid methyltransferase; Region: PEMT; cl00763 398527001820 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 398527001821 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 398527001822 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 398527001823 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 398527001824 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 398527001825 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398527001826 N-terminal plug; other site 398527001827 ligand-binding site [chemical binding]; other site 398527001828 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 398527001829 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527001830 binding surface 398527001831 TPR motif; other site 398527001832 TPR repeat; Region: TPR_11; pfam13414 398527001833 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527001834 TPR motif; other site 398527001835 binding surface 398527001836 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398527001837 TPR repeat; Region: TPR_11; pfam13414 398527001838 TPR repeat; Region: TPR_11; pfam13414 398527001839 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527001840 binding surface 398527001841 TPR motif; other site 398527001842 TPR repeat; Region: TPR_11; pfam13414 398527001843 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527001844 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398527001845 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527001846 Helix-turn-helix domains; Region: HTH; cl00088 398527001847 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527001848 dimerization interface [polypeptide binding]; other site 398527001849 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 398527001850 xanthine permease; Region: pbuX; TIGR03173 398527001851 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527001852 trimer interface [polypeptide binding]; other site 398527001853 eyelet of channel; other site 398527001854 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 398527001855 Uncharacterized conserved protein [Function unknown]; Region: COG2128 398527001856 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527001857 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527001858 non-specific DNA binding site [nucleotide binding]; other site 398527001859 salt bridge; other site 398527001860 sequence-specific DNA binding site [nucleotide binding]; other site 398527001861 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527001862 trimer interface [polypeptide binding]; other site 398527001863 eyelet of channel; other site 398527001864 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398527001865 Cytochrome c; Region: Cytochrom_C; cl11414 398527001866 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398527001867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001868 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527001869 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 398527001870 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527001871 DNA-binding site [nucleotide binding]; DNA binding site 398527001872 FCD domain; Region: FCD; cl11656 398527001873 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 398527001874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527001875 Helix-turn-helix domains; Region: HTH; cl00088 398527001876 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 398527001877 putative dimerization interface [polypeptide binding]; other site 398527001878 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 398527001879 substrate binding site [chemical binding]; other site 398527001880 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 398527001881 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 398527001882 substrate binding site [chemical binding]; other site 398527001883 ligand binding site [chemical binding]; other site 398527001884 benzoate transport; Region: 2A0115; TIGR00895 398527001885 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001886 putative substrate translocation pore; other site 398527001887 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001888 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398527001889 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527001890 DNA-binding site [nucleotide binding]; DNA binding site 398527001891 FCD domain; Region: FCD; cl11656 398527001892 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 398527001893 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398527001894 benzoate transport; Region: 2A0115; TIGR00895 398527001895 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001896 putative substrate translocation pore; other site 398527001897 GAF domain; Region: GAF; cl15785 398527001898 GAF domain; Region: GAF_2; pfam13185 398527001899 putative sialic acid transporter; Provisional; Region: PRK12307 398527001900 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001901 putative substrate translocation pore; other site 398527001902 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 398527001903 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398527001904 DNA polymerase II; Reviewed; Region: PRK05762 398527001905 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 398527001906 active site 398527001907 catalytic site [active] 398527001908 substrate binding site [chemical binding]; other site 398527001909 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 398527001910 active site 398527001911 metal-binding site 398527001912 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 398527001913 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 398527001914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001915 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527001916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527001917 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398527001918 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 398527001919 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 398527001920 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527001921 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001922 dimer interface [polypeptide binding]; other site 398527001923 conserved gate region; other site 398527001924 putative PBP binding loops; other site 398527001925 ABC-ATPase subunit interface; other site 398527001926 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527001927 dimer interface [polypeptide binding]; other site 398527001928 conserved gate region; other site 398527001929 putative PBP binding loops; other site 398527001930 ABC-ATPase subunit interface; other site 398527001931 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 398527001932 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 398527001933 Walker A/P-loop; other site 398527001934 ATP binding site [chemical binding]; other site 398527001935 Q-loop/lid; other site 398527001936 ABC transporter signature motif; other site 398527001937 Walker B; other site 398527001938 D-loop; other site 398527001939 H-loop/switch region; other site 398527001940 TOBE domain; Region: TOBE_2; cl01440 398527001941 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 398527001942 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527001943 putative aminotransferase; Validated; Region: PRK07480 398527001944 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527001945 inhibitor-cofactor binding pocket; inhibition site 398527001946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527001947 catalytic residue [active] 398527001948 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 398527001949 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398527001950 Peptidase C26; Region: Peptidase_C26; pfam07722 398527001951 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 398527001952 catalytic triad [active] 398527001953 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527001954 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 398527001955 non-specific DNA binding site [nucleotide binding]; other site 398527001956 salt bridge; other site 398527001957 sequence-specific DNA binding site [nucleotide binding]; other site 398527001958 Cupin domain; Region: Cupin_2; cl09118 398527001959 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 398527001960 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 398527001961 NAD(P) binding site [chemical binding]; other site 398527001962 catalytic residues [active] 398527001963 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001964 putative substrate translocation pore; other site 398527001965 Helix-turn-helix domains; Region: HTH; cl00088 398527001966 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527001967 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398527001968 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398527001969 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 398527001970 active site residue [active] 398527001971 Cupin domain; Region: Cupin_2; cl09118 398527001972 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 398527001973 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527001974 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527001975 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 398527001976 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527001977 putative substrate translocation pore; other site 398527001978 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527001979 Helix-turn-helix domains; Region: HTH; cl00088 398527001980 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527001981 dimerization interface [polypeptide binding]; other site 398527001982 substrate binding pocket [chemical binding]; other site 398527001983 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527001984 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 398527001985 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527001986 metal binding site [ion binding]; metal-binding site 398527001987 active site 398527001988 I-site; other site 398527001989 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527001990 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 398527001991 IHF dimer interface [polypeptide binding]; other site 398527001992 IHF - DNA interface [nucleotide binding]; other site 398527001993 NeuB family; Region: NeuB; cl00496 398527001994 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398527001995 Protein of unknown function DUF72; Region: DUF72; cl00777 398527001996 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527001997 Helix-turn-helix domains; Region: HTH; cl00088 398527001998 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 398527001999 isovaleryl-CoA dehydrogenase; Region: PLN02519 398527002000 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 398527002001 substrate binding site [chemical binding]; other site 398527002002 FAD binding site [chemical binding]; other site 398527002003 catalytic base [active] 398527002004 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 398527002005 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 398527002006 enoyl-CoA hydratase; Provisional; Region: PRK05995 398527002007 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527002008 substrate binding site [chemical binding]; other site 398527002009 oxyanion hole (OAH) forming residues; other site 398527002010 trimer interface [polypeptide binding]; other site 398527002011 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 398527002012 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398527002013 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 398527002014 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 398527002015 carboxyltransferase (CT) interaction site; other site 398527002016 biotinylation site [posttranslational modification]; other site 398527002017 NMT1-like family; Region: NMT1_2; cl15260 398527002018 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398527002019 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 398527002020 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527002021 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 398527002022 putative uracil binding site [chemical binding]; other site 398527002023 putative active site [active] 398527002024 Protein of unknown function, DUF488; Region: DUF488; cl01246 398527002025 CAAX protease self-immunity; Region: Abi; cl00558 398527002026 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 398527002027 active site 398527002028 barstar interaction site; other site 398527002029 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398527002030 tyrosine kinase; Provisional; Region: PRK11519 398527002031 Chain length determinant protein; Region: Wzz; cl15801 398527002032 Chain length determinant protein; Region: Wzz; cl15801 398527002033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527002034 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 398527002035 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398527002036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002037 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 398527002038 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 398527002039 NAD binding site [chemical binding]; other site 398527002040 substrate binding site [chemical binding]; other site 398527002041 homodimer interface [polypeptide binding]; other site 398527002042 active site 398527002043 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 398527002044 MatE; Region: MatE; cl10513 398527002045 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527002046 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 398527002047 putative ADP-binding pocket [chemical binding]; other site 398527002048 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527002049 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 398527002050 putative ADP-binding pocket [chemical binding]; other site 398527002051 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 398527002052 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527002053 putative ADP-binding pocket [chemical binding]; other site 398527002054 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u1; cd10925 398527002055 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 398527002056 NodB motif; other site 398527002057 putative active site [active] 398527002058 putative catalytic site [active] 398527002059 putative Zn binding site [ion binding]; other site 398527002060 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 398527002061 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527002062 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 398527002063 putative ADP-binding pocket [chemical binding]; other site 398527002064 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 398527002065 Mg++ binding site [ion binding]; other site 398527002066 putative catalytic motif [active] 398527002067 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527002068 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527002069 DNA-binding site [nucleotide binding]; DNA binding site 398527002070 FCD domain; Region: FCD; cl11656 398527002071 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398527002072 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 398527002073 glutaminase active site [active] 398527002074 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 398527002075 dimer interface [polypeptide binding]; other site 398527002076 active site 398527002077 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 398527002078 dimer interface [polypeptide binding]; other site 398527002079 active site 398527002080 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 398527002081 active site 398527002082 catalytic triad [active] 398527002083 oxyanion hole [active] 398527002084 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 398527002085 AMP-binding enzyme; Region: AMP-binding; cl15778 398527002086 L-aminoadipate-semialdehyde dehydrogenase; Region: alpha_am_amid; TIGR03443 398527002087 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527002088 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 398527002089 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 398527002090 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 398527002091 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 398527002092 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 398527002093 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 398527002094 putative active site pocket [active] 398527002095 putative metal binding site [ion binding]; other site 398527002096 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527002097 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527002098 putative substrate translocation pore; other site 398527002099 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398527002100 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 398527002101 putative NAD(P) binding site [chemical binding]; other site 398527002102 catalytic Zn binding site [ion binding]; other site 398527002103 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527002104 D-galactonate transporter; Region: 2A0114; TIGR00893 398527002105 putative substrate translocation pore; other site 398527002106 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527002107 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527002108 DNA-binding site [nucleotide binding]; DNA binding site 398527002109 FCD domain; Region: FCD; cl11656 398527002110 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 398527002111 ATP adenylyltransferase; Region: ATP_transf; pfam09830 398527002112 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527002113 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398527002114 conserved cys residue [active] 398527002115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527002116 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398527002117 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 398527002118 putative active site [active] 398527002119 catalytic triad [active] 398527002120 putative dimer interface [polypeptide binding]; other site 398527002121 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 398527002122 active site clefts [active] 398527002123 zinc binding site [ion binding]; other site 398527002124 dimer interface [polypeptide binding]; other site 398527002125 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 398527002126 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398527002127 Domain of unknown function (DUF336); Region: DUF336; cl01249 398527002128 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_6; cd07242 398527002129 putative dimer interface [polypeptide binding]; other site 398527002130 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527002131 ligand binding site [chemical binding]; other site 398527002132 Zn binding site [ion binding]; other site 398527002133 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527002134 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527002135 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527002136 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 398527002137 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527002138 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 398527002139 Predicted membrane protein [Function unknown]; Region: COG4129 398527002140 AMP-binding enzyme; Region: AMP-binding; cl15778 398527002141 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 398527002142 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527002143 trimer interface [polypeptide binding]; other site 398527002144 eyelet of channel; other site 398527002145 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 398527002146 heme binding pocket [chemical binding]; other site 398527002147 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 398527002148 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527002149 substrate binding pocket [chemical binding]; other site 398527002150 membrane-bound complex binding site; other site 398527002151 hinge residues; other site 398527002152 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527002153 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 398527002154 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 398527002155 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 398527002156 Protein export membrane protein; Region: SecD_SecF; cl14618 398527002157 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 398527002158 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527002159 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527002160 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398527002161 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 398527002162 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527002163 Walker A/P-loop; other site 398527002164 ATP binding site [chemical binding]; other site 398527002165 Q-loop/lid; other site 398527002166 ABC transporter signature motif; other site 398527002167 Walker B; other site 398527002168 D-loop; other site 398527002169 H-loop/switch region; other site 398527002170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002171 active site 398527002172 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527002173 phosphorylation site [posttranslational modification] 398527002174 intermolecular recognition site; other site 398527002175 dimerization interface [polypeptide binding]; other site 398527002176 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527002177 dimer interface [polypeptide binding]; other site 398527002178 phosphorylation site [posttranslational modification] 398527002179 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527002180 ATP binding site [chemical binding]; other site 398527002181 G-X-G motif; other site 398527002182 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527002183 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527002184 ATP binding site [chemical binding]; other site 398527002185 Mg2+ binding site [ion binding]; other site 398527002186 G-X-G motif; other site 398527002187 Response regulator receiver domain; Region: Response_reg; pfam00072 398527002188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002189 active site 398527002190 phosphorylation site [posttranslational modification] 398527002191 intermolecular recognition site; other site 398527002192 dimerization interface [polypeptide binding]; other site 398527002193 Response regulator receiver domain; Region: Response_reg; pfam00072 398527002194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002195 active site 398527002196 phosphorylation site [posttranslational modification] 398527002197 intermolecular recognition site; other site 398527002198 dimerization interface [polypeptide binding]; other site 398527002199 Predicted dehydrogenase [General function prediction only]; Region: COG5322 398527002200 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 398527002201 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527002202 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527002203 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398527002204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002205 active site 398527002206 phosphorylation site [posttranslational modification] 398527002207 intermolecular recognition site; other site 398527002208 dimerization interface [polypeptide binding]; other site 398527002209 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527002210 DNA binding site [nucleotide binding] 398527002211 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398527002212 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 398527002213 active site 398527002214 LssY C-terminus; Region: LssY_C; pfam14067 398527002215 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 398527002216 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 398527002217 OsmC-like protein; Region: OsmC; cl00767 398527002218 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 398527002219 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398527002220 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527002221 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527002222 putative DNA binding site [nucleotide binding]; other site 398527002223 putative Zn2+ binding site [ion binding]; other site 398527002224 AsnC family; Region: AsnC_trans_reg; pfam01037 398527002225 LysE type translocator; Region: LysE; cl00565 398527002226 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 398527002227 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 398527002228 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 398527002229 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 398527002230 peptidase domain interface [polypeptide binding]; other site 398527002231 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 398527002232 active site 398527002233 catalytic triad [active] 398527002234 calcium binding site [ion binding]; other site 398527002235 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 398527002236 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 398527002237 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 398527002238 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 398527002239 homodimer interface [polypeptide binding]; other site 398527002240 NAD binding pocket [chemical binding]; other site 398527002241 ATP binding pocket [chemical binding]; other site 398527002242 Mg binding site [ion binding]; other site 398527002243 active-site loop [active] 398527002244 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527002245 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 398527002246 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398527002247 Helix-turn-helix domains; Region: HTH; cl00088 398527002248 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527002249 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527002250 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398527002251 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 398527002252 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527002253 Walker A/P-loop; other site 398527002254 ATP binding site [chemical binding]; other site 398527002255 Q-loop/lid; other site 398527002256 ABC transporter signature motif; other site 398527002257 Walker B; other site 398527002258 D-loop; other site 398527002259 H-loop/switch region; other site 398527002260 TOBE domain; Region: TOBE_2; cl01440 398527002261 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 398527002262 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002263 dimer interface [polypeptide binding]; other site 398527002264 conserved gate region; other site 398527002265 putative PBP binding loops; other site 398527002266 ABC-ATPase subunit interface; other site 398527002267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 398527002268 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 398527002269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527002270 DNA-binding site [nucleotide binding]; DNA binding site 398527002271 FCD domain; Region: FCD; cl11656 398527002272 Sulfatase; Region: Sulfatase; cl10460 398527002273 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 398527002274 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527002275 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 398527002276 NAD(P) binding site [chemical binding]; other site 398527002277 catalytic residues [active] 398527002278 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 398527002279 transcriptional regulator; Provisional; Region: PRK10632 398527002280 Helix-turn-helix domains; Region: HTH; cl00088 398527002281 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527002282 putative effector binding pocket; other site 398527002283 dimerization interface [polypeptide binding]; other site 398527002284 Fusaric acid resistance protein family; Region: FUSC; pfam04632 398527002285 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 398527002286 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 398527002287 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527002288 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 398527002289 MgtC family; Region: MgtC; pfam02308 398527002290 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 398527002291 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 398527002292 putative active site [active] 398527002293 putative metal binding site [ion binding]; other site 398527002294 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 398527002295 putative FMN binding site [chemical binding]; other site 398527002296 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527002297 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 398527002298 putative ligand binding site [chemical binding]; other site 398527002299 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527002300 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527002301 Walker A/P-loop; other site 398527002302 ATP binding site [chemical binding]; other site 398527002303 Q-loop/lid; other site 398527002304 ABC transporter signature motif; other site 398527002305 Walker B; other site 398527002306 D-loop; other site 398527002307 H-loop/switch region; other site 398527002308 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527002309 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527002310 TM-ABC transporter signature motif; other site 398527002311 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527002312 TM-ABC transporter signature motif; other site 398527002313 benzoate transport; Region: 2A0115; TIGR00895 398527002314 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527002315 putative substrate translocation pore; other site 398527002316 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 398527002317 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527002318 Helix-turn-helix domains; Region: HTH; cl00088 398527002319 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527002320 dimerization interface [polypeptide binding]; other site 398527002321 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398527002322 Acyl transferase domain; Region: Acyl_transf_1; cl08282 398527002323 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 398527002324 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 398527002325 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 398527002326 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 398527002327 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 398527002328 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 398527002329 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527002330 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527002331 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527002332 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527002333 DNA-binding site [nucleotide binding]; DNA binding site 398527002334 FCD domain; Region: FCD; cl11656 398527002335 benzoate transport; Region: 2A0115; TIGR00895 398527002336 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527002337 putative substrate translocation pore; other site 398527002338 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398527002339 EamA-like transporter family; Region: EamA; cl01037 398527002340 EamA-like transporter family; Region: EamA; cl01037 398527002341 Helix-turn-helix domains; Region: HTH; cl00088 398527002342 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527002343 dimerization interface [polypeptide binding]; other site 398527002344 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527002345 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 398527002346 Walker A/P-loop; other site 398527002347 ATP binding site [chemical binding]; other site 398527002348 Q-loop/lid; other site 398527002349 ABC transporter signature motif; other site 398527002350 Walker B; other site 398527002351 D-loop; other site 398527002352 H-loop/switch region; other site 398527002353 TOBE domain; Region: TOBE_2; cl01440 398527002354 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002355 dimer interface [polypeptide binding]; other site 398527002356 conserved gate region; other site 398527002357 ABC-ATPase subunit interface; other site 398527002358 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002359 dimer interface [polypeptide binding]; other site 398527002360 conserved gate region; other site 398527002361 putative PBP binding loops; other site 398527002362 ABC-ATPase subunit interface; other site 398527002363 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398527002364 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527002365 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 398527002366 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 398527002367 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398527002368 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 398527002369 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 398527002370 N-acetyltransferase; Region: Acetyltransf_2; cl00949 398527002371 Phospholipid methyltransferase; Region: PEMT; cl00763 398527002372 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398527002373 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527002374 substrate binding pocket [chemical binding]; other site 398527002375 membrane-bound complex binding site; other site 398527002376 hinge residues; other site 398527002377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002378 dimer interface [polypeptide binding]; other site 398527002379 conserved gate region; other site 398527002380 putative PBP binding loops; other site 398527002381 ABC-ATPase subunit interface; other site 398527002382 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002383 dimer interface [polypeptide binding]; other site 398527002384 conserved gate region; other site 398527002385 putative PBP binding loops; other site 398527002386 ABC-ATPase subunit interface; other site 398527002387 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 398527002388 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 398527002389 Walker A/P-loop; other site 398527002390 ATP binding site [chemical binding]; other site 398527002391 Q-loop/lid; other site 398527002392 ABC transporter signature motif; other site 398527002393 Walker B; other site 398527002394 D-loop; other site 398527002395 H-loop/switch region; other site 398527002396 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398527002397 active sites [active] 398527002398 tetramer interface [polypeptide binding]; other site 398527002399 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 398527002400 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527002401 DNA-binding site [nucleotide binding]; DNA binding site 398527002402 UTRA domain; Region: UTRA; cl01230 398527002403 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 398527002404 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527002405 DNA-binding site [nucleotide binding]; DNA binding site 398527002406 UTRA domain; Region: UTRA; cl01230 398527002407 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398527002408 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 398527002409 Walker A/P-loop; other site 398527002410 ATP binding site [chemical binding]; other site 398527002411 Q-loop/lid; other site 398527002412 ABC transporter signature motif; other site 398527002413 Walker B; other site 398527002414 D-loop; other site 398527002415 H-loop/switch region; other site 398527002416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002417 dimer interface [polypeptide binding]; other site 398527002418 conserved gate region; other site 398527002419 putative PBP binding loops; other site 398527002420 ABC-ATPase subunit interface; other site 398527002421 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002422 dimer interface [polypeptide binding]; other site 398527002423 conserved gate region; other site 398527002424 putative PBP binding loops; other site 398527002425 ABC-ATPase subunit interface; other site 398527002426 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527002427 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527002428 substrate binding pocket [chemical binding]; other site 398527002429 membrane-bound complex binding site; other site 398527002430 hinge residues; other site 398527002431 oxidase reductase; Provisional; Region: PTZ00273 398527002432 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 398527002433 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527002434 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398527002435 FAD binding domain; Region: FAD_binding_4; pfam01565 398527002436 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398527002437 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527002438 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 398527002439 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 398527002440 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527002441 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527002442 dimer interface [polypeptide binding]; other site 398527002443 phosphorylation site [posttranslational modification] 398527002444 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527002445 ATP binding site [chemical binding]; other site 398527002446 Mg2+ binding site [ion binding]; other site 398527002447 G-X-G motif; other site 398527002448 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398527002449 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002450 active site 398527002451 phosphorylation site [posttranslational modification] 398527002452 intermolecular recognition site; other site 398527002453 dimerization interface [polypeptide binding]; other site 398527002454 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527002455 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002456 active site 398527002457 phosphorylation site [posttranslational modification] 398527002458 intermolecular recognition site; other site 398527002459 dimerization interface [polypeptide binding]; other site 398527002460 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527002461 DNA binding residues [nucleotide binding] 398527002462 dimerization interface [polypeptide binding]; other site 398527002463 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398527002464 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398527002465 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 398527002466 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527002467 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527002468 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527002469 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 398527002470 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 398527002471 extended (e) SDRs; Region: SDR_e; cd08946 398527002472 NAD(P) binding site [chemical binding]; other site 398527002473 active site 398527002474 substrate binding site [chemical binding]; other site 398527002475 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527002476 D-galactonate transporter; Region: 2A0114; TIGR00893 398527002477 putative substrate translocation pore; other site 398527002478 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 398527002479 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 398527002480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002481 tartronate semialdehyde reductase; Provisional; Region: PRK15059 398527002482 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 398527002483 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 398527002484 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527002485 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 398527002486 dimer interface [polypeptide binding]; other site 398527002487 NADP binding site [chemical binding]; other site 398527002488 catalytic residues [active] 398527002489 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527002490 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527002491 DNA-binding site [nucleotide binding]; DNA binding site 398527002492 FCD domain; Region: FCD; cl11656 398527002493 D-galactonate transporter; Region: 2A0114; TIGR00893 398527002494 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527002495 putative substrate translocation pore; other site 398527002496 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527002497 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 398527002498 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398527002499 putative active site [active] 398527002500 catalytic residue [active] 398527002501 galactarate dehydratase; Region: galactar-dH20; TIGR03248 398527002502 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 398527002503 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 398527002504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002505 NAD(P) binding site [chemical binding]; other site 398527002506 active site 398527002507 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398527002508 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398527002509 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 398527002510 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 398527002511 DctM-like transporters; Region: DctM; pfam06808 398527002512 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 398527002513 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527002514 trimer interface [polypeptide binding]; other site 398527002515 eyelet of channel; other site 398527002516 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 398527002517 active site 1 [active] 398527002518 dimer interface [polypeptide binding]; other site 398527002519 hexamer interface [polypeptide binding]; other site 398527002520 active site 2 [active] 398527002521 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 398527002522 intersubunit interface [polypeptide binding]; other site 398527002523 active site 398527002524 Zn2+ binding site [ion binding]; other site 398527002525 Urea transporter; Region: UT; cl01829 398527002526 Putative glycolipid-binding; Region: Glycolipid_bind; cl01425 398527002527 short chain dehydrogenase; Validated; Region: PRK05855 398527002528 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 398527002529 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 398527002530 short chain dehydrogenase; Provisional; Region: PRK07832 398527002531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002532 NAD(P) binding site [chemical binding]; other site 398527002533 active site 398527002534 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 398527002535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002536 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398527002537 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527002538 substrate binding pocket [chemical binding]; other site 398527002539 membrane-bound complex binding site; other site 398527002540 hinge residues; other site 398527002541 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 398527002542 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398527002543 DNA binding residues [nucleotide binding] 398527002544 putative dimer interface [polypeptide binding]; other site 398527002545 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 398527002546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527002547 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527002548 Coenzyme A binding pocket [chemical binding]; other site 398527002549 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398527002550 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398527002551 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398527002552 putative active site [active] 398527002553 EamA-like transporter family; Region: EamA; cl01037 398527002554 NMT1-like family; Region: NMT1_2; cl15260 398527002555 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 398527002556 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527002557 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527002558 putative substrate translocation pore; other site 398527002559 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527002560 Helix-turn-helix domains; Region: HTH; cl00088 398527002561 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 398527002562 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 398527002563 Response regulator receiver domain; Region: Response_reg; pfam00072 398527002564 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002565 active site 398527002566 phosphorylation site [posttranslational modification] 398527002567 intermolecular recognition site; other site 398527002568 dimerization interface [polypeptide binding]; other site 398527002569 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398527002570 metal binding site 2 [ion binding]; metal-binding site 398527002571 putative DNA binding helix; other site 398527002572 metal binding site 1 [ion binding]; metal-binding site 398527002573 dimer interface [polypeptide binding]; other site 398527002574 structural Zn2+ binding site [ion binding]; other site 398527002575 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527002576 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 398527002577 putative C-terminal domain interface [polypeptide binding]; other site 398527002578 putative GSH binding site (G-site) [chemical binding]; other site 398527002579 putative dimer interface [polypeptide binding]; other site 398527002580 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 398527002581 putative N-terminal domain interface [polypeptide binding]; other site 398527002582 putative dimer interface [polypeptide binding]; other site 398527002583 putative substrate binding pocket (H-site) [chemical binding]; other site 398527002584 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 398527002585 Family description; Region: UvrD_C_2; cl15862 398527002586 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398527002587 active site 398527002588 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 398527002589 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527002590 dimer interface [polypeptide binding]; other site 398527002591 phosphorylation site [posttranslational modification] 398527002592 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 398527002593 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527002594 ATP binding site [chemical binding]; other site 398527002595 Mg2+ binding site [ion binding]; other site 398527002596 G-X-G motif; other site 398527002597 Response regulator receiver domain; Region: Response_reg; pfam00072 398527002598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002599 active site 398527002600 phosphorylation site [posttranslational modification] 398527002601 intermolecular recognition site; other site 398527002602 dimerization interface [polypeptide binding]; other site 398527002603 BetR domain; Region: BetR; pfam08667 398527002604 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002605 active site 398527002606 phosphorylation site [posttranslational modification] 398527002607 intermolecular recognition site; other site 398527002608 dimerization interface [polypeptide binding]; other site 398527002609 HipA N-terminal domain; Region: Couple_hipA; cl11853 398527002610 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 398527002611 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398527002612 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398527002613 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527002614 non-specific DNA binding site [nucleotide binding]; other site 398527002615 salt bridge; other site 398527002616 sequence-specific DNA binding site [nucleotide binding]; other site 398527002617 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398527002618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002619 Ion channel; Region: Ion_trans_2; cl11596 398527002620 lysine-specific histone demethylase 1 homolog; Region: PLN02328 398527002621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002622 ornithine cyclodeaminase; Validated; Region: PRK07340 398527002623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002624 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 398527002625 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 398527002626 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 398527002627 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 398527002628 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 398527002629 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 398527002630 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 398527002631 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527002632 TPR motif; other site 398527002633 binding surface 398527002634 Protein of unknown function (DUF770); Region: DUF770; cl01402 398527002635 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 398527002636 Protein of unknown function (DUF877); Region: DUF877; pfam05943 398527002637 Protein of unknown function (DUF796); Region: DUF796; cl01226 398527002638 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 398527002639 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398527002640 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 398527002641 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 398527002642 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 398527002643 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527002644 Walker A motif; other site 398527002645 ATP binding site [chemical binding]; other site 398527002646 Walker B motif; other site 398527002647 arginine finger; other site 398527002648 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527002649 Walker A motif; other site 398527002650 ATP binding site [chemical binding]; other site 398527002651 Walker B motif; other site 398527002652 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 398527002653 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 398527002654 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 398527002655 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 398527002656 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527002657 ligand binding site [chemical binding]; other site 398527002658 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 398527002659 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 398527002660 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 398527002661 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 398527002662 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 398527002663 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 398527002664 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 398527002665 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 398527002666 active site 398527002667 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527002668 Helix-turn-helix domains; Region: HTH; cl00088 398527002669 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 398527002670 putative effector binding pocket; other site 398527002671 putative dimerization interface [polypeptide binding]; other site 398527002672 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398527002673 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 398527002674 putative NAD(P) binding site [chemical binding]; other site 398527002675 putative substrate binding site [chemical binding]; other site 398527002676 catalytic Zn binding site [ion binding]; other site 398527002677 structural Zn binding site [ion binding]; other site 398527002678 dimer interface [polypeptide binding]; other site 398527002679 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 398527002680 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527002681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527002682 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 398527002683 Moco binding site; other site 398527002684 metal coordination site [ion binding]; other site 398527002685 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398527002686 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398527002687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002688 active site 398527002689 phosphorylation site [posttranslational modification] 398527002690 intermolecular recognition site; other site 398527002691 dimerization interface [polypeptide binding]; other site 398527002692 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527002693 DNA binding site [nucleotide binding] 398527002694 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398527002695 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527002696 dimerization interface [polypeptide binding]; other site 398527002697 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527002698 dimer interface [polypeptide binding]; other site 398527002699 phosphorylation site [posttranslational modification] 398527002700 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527002701 ATP binding site [chemical binding]; other site 398527002702 Mg2+ binding site [ion binding]; other site 398527002703 G-X-G motif; other site 398527002704 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 398527002705 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527002706 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 398527002707 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 398527002708 PhnA protein; Region: PhnA; pfam03831 398527002709 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 398527002710 PAS domain; Region: PAS_9; pfam13426 398527002711 PAS domain; Region: PAS_9; pfam13426 398527002712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527002713 metal binding site [ion binding]; metal-binding site 398527002714 active site 398527002715 I-site; other site 398527002716 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398527002717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002718 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398527002719 molybdopterin cofactor binding site; other site 398527002720 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398527002721 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_2; cd02783 398527002722 putative molybdopterin cofactor binding site; other site 398527002723 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 398527002724 4Fe-4S binding domain; Region: Fer4; cl02805 398527002725 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 398527002726 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 398527002727 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 398527002728 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 398527002729 active site 398527002730 dimer interface [polypeptide binding]; other site 398527002731 effector binding site; other site 398527002732 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398527002733 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398527002734 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 398527002735 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527002736 Putative esterase; Region: Esterase; pfam00756 398527002737 OpgC protein; Region: OpgC_C; cl00792 398527002738 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527002739 trimer interface [polypeptide binding]; other site 398527002740 eyelet of channel; other site 398527002741 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 398527002742 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 398527002743 dimer interface [polypeptide binding]; other site 398527002744 ADP-ribose binding site [chemical binding]; other site 398527002745 active site 398527002746 nudix motif; other site 398527002747 metal binding site [ion binding]; metal-binding site 398527002748 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398527002749 Helix-turn-helix domains; Region: HTH; cl00088 398527002750 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527002751 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527002752 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 398527002753 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527002754 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398527002755 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527002756 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398527002757 Cytochrome c; Region: Cytochrom_C; cl11414 398527002758 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398527002759 hydrophobic ligand binding site; other site 398527002760 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398527002761 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 398527002762 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527002763 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398527002764 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527002765 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527002766 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527002767 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398527002768 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527002769 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527002770 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527002771 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398527002772 Cytochrome c; Region: Cytochrom_C; cl11414 398527002773 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527002774 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002775 dimer interface [polypeptide binding]; other site 398527002776 conserved gate region; other site 398527002777 putative PBP binding loops; other site 398527002778 ABC-ATPase subunit interface; other site 398527002779 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527002780 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002781 dimer interface [polypeptide binding]; other site 398527002782 conserved gate region; other site 398527002783 putative PBP binding loops; other site 398527002784 ABC-ATPase subunit interface; other site 398527002785 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527002786 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527002787 substrate binding pocket [chemical binding]; other site 398527002788 membrane-bound complex binding site; other site 398527002789 hinge residues; other site 398527002790 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 398527002791 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527002792 Walker A/P-loop; other site 398527002793 ATP binding site [chemical binding]; other site 398527002794 Q-loop/lid; other site 398527002795 ABC transporter signature motif; other site 398527002796 Walker B; other site 398527002797 D-loop; other site 398527002798 H-loop/switch region; other site 398527002799 TOBE domain; Region: TOBE_2; cl01440 398527002800 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002801 dimer interface [polypeptide binding]; other site 398527002802 conserved gate region; other site 398527002803 putative PBP binding loops; other site 398527002804 ABC-ATPase subunit interface; other site 398527002805 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527002806 dimer interface [polypeptide binding]; other site 398527002807 conserved gate region; other site 398527002808 putative PBP binding loops; other site 398527002809 ABC-ATPase subunit interface; other site 398527002810 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 398527002811 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527002812 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527002813 Helix-turn-helix domains; Region: HTH; cl00088 398527002814 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527002815 substrate binding pocket [chemical binding]; other site 398527002816 dimerization interface [polypeptide binding]; other site 398527002817 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 398527002818 BON domain; Region: BON; cl02771 398527002819 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 398527002820 active site 398527002821 DNA binding site [nucleotide binding] 398527002822 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527002823 FOG: CBS domain [General function prediction only]; Region: COG0517 398527002824 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 398527002825 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 398527002826 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 398527002827 dimerization interface [polypeptide binding]; other site 398527002828 active site 398527002829 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 398527002830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002831 NAD(P) binding site [chemical binding]; other site 398527002832 active site 398527002833 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527002834 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 398527002835 Putative zinc-finger; Region: zf-HC2; cl15806 398527002836 RNA polymerase sigma factor; Provisional; Region: PRK12511 398527002837 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527002838 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527002839 DNA binding residues [nucleotide binding] 398527002840 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527002841 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 398527002842 putative heme binding pocket [chemical binding]; other site 398527002843 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398527002844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002845 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527002846 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 398527002847 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 398527002848 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 398527002849 Helix-turn-helix domains; Region: HTH; cl00088 398527002850 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527002851 Uncharacterized conserved protein [Function unknown]; Region: COG4715 398527002852 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 398527002853 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527002854 ATP binding site [chemical binding]; other site 398527002855 putative Mg++ binding site [ion binding]; other site 398527002856 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527002857 nucleotide binding region [chemical binding]; other site 398527002858 ATP-binding site [chemical binding]; other site 398527002859 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398527002860 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 398527002861 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 398527002862 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398527002863 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527002864 active site 398527002865 phosphorylation site [posttranslational modification] 398527002866 intermolecular recognition site; other site 398527002867 dimerization interface [polypeptide binding]; other site 398527002868 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527002869 DNA binding site [nucleotide binding] 398527002870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 398527002871 FecR protein; Region: FecR; pfam04773 398527002872 CHASE2 domain; Region: CHASE2; cl01732 398527002873 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 398527002874 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527002875 dimer interface [polypeptide binding]; other site 398527002876 phosphorylation site [posttranslational modification] 398527002877 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527002878 ATP binding site [chemical binding]; other site 398527002879 Mg2+ binding site [ion binding]; other site 398527002880 G-X-G motif; other site 398527002881 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 398527002882 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 398527002883 putative FMN binding site [chemical binding]; other site 398527002884 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 398527002885 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 398527002886 catalytic triad [active] 398527002887 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 398527002888 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 398527002889 homodimer interface [polypeptide binding]; other site 398527002890 Walker A motif; other site 398527002891 ATP binding site [chemical binding]; other site 398527002892 hydroxycobalamin binding site [chemical binding]; other site 398527002893 Walker B motif; other site 398527002894 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 398527002895 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 398527002896 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 398527002897 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 398527002898 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527002899 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 398527002900 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 398527002901 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 398527002902 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 398527002903 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 398527002904 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527002905 Walker A motif; other site 398527002906 ATP binding site [chemical binding]; other site 398527002907 Walker B motif; other site 398527002908 arginine finger; other site 398527002909 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 398527002910 metal ion-dependent adhesion site (MIDAS); other site 398527002911 Flagellar protein YcgR; Region: YcgR_2; pfam12945 398527002912 PilZ domain; Region: PilZ; cl01260 398527002913 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 398527002914 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398527002915 FtsX-like permease family; Region: FtsX; cl15850 398527002916 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398527002917 FtsX-like permease family; Region: FtsX; cl15850 398527002918 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398527002919 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 398527002920 Walker A/P-loop; other site 398527002921 ATP binding site [chemical binding]; other site 398527002922 Q-loop/lid; other site 398527002923 ABC transporter signature motif; other site 398527002924 Walker B; other site 398527002925 D-loop; other site 398527002926 H-loop/switch region; other site 398527002927 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 398527002928 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 398527002929 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 398527002930 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 398527002931 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 398527002932 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 398527002933 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 398527002934 D-pathway; other site 398527002935 Putative ubiquinol binding site [chemical binding]; other site 398527002936 Low-spin heme (heme b) binding site [chemical binding]; other site 398527002937 Putative water exit pathway; other site 398527002938 Binuclear center (heme o3/CuB) [ion binding]; other site 398527002939 K-pathway; other site 398527002940 Putative proton exit pathway; other site 398527002941 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 398527002942 Subunit I/III interface [polypeptide binding]; other site 398527002943 Subunit III/IV interface [polypeptide binding]; other site 398527002944 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 398527002945 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 398527002946 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398527002947 active site 398527002948 HIGH motif; other site 398527002949 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398527002950 active site 398527002951 KMSKS motif; other site 398527002952 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 398527002953 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527002954 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 398527002955 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527002956 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 398527002957 Phosphoesterase family; Region: Phosphoesterase; cl15450 398527002958 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527002959 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527002960 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 398527002961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5267 398527002962 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 398527002963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 398527002964 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 398527002965 Flavin Reductases; Region: FlaRed; cl00801 398527002966 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 398527002967 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 398527002968 active site 398527002969 non-prolyl cis peptide bond; other site 398527002970 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527002971 non-specific DNA binding site [nucleotide binding]; other site 398527002972 salt bridge; other site 398527002973 sequence-specific DNA binding site [nucleotide binding]; other site 398527002974 BON domain; Region: BON; cl02771 398527002975 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527002976 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527002977 active site 398527002978 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398527002979 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 398527002980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527002981 NAD(P) binding site [chemical binding]; other site 398527002982 active site 398527002983 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 398527002984 AMP-binding enzyme; Region: AMP-binding; cl15778 398527002985 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527002986 Helix-turn-helix domains; Region: HTH; cl00088 398527002987 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527002988 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 398527002989 putative effector binding pocket; other site 398527002990 putative dimerization interface [polypeptide binding]; other site 398527002991 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 398527002992 tartrate dehydrogenase; Provisional; Region: PRK08194 398527002993 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398527002994 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527002995 putative substrate translocation pore; other site 398527002996 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 398527002997 diiron binding motif [ion binding]; other site 398527002998 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 398527002999 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 398527003000 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 398527003001 Walker A/P-loop; other site 398527003002 ATP binding site [chemical binding]; other site 398527003003 Q-loop/lid; other site 398527003004 ABC transporter signature motif; other site 398527003005 Walker B; other site 398527003006 D-loop; other site 398527003007 H-loop/switch region; other site 398527003008 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 398527003009 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527003010 dimer interface [polypeptide binding]; other site 398527003011 conserved gate region; other site 398527003012 putative PBP binding loops; other site 398527003013 ABC-ATPase subunit interface; other site 398527003014 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527003015 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398527003016 conserved cys residue [active] 398527003017 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 398527003018 NMT1-like family; Region: NMT1_2; cl15260 398527003019 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398527003020 RHS Repeat; Region: RHS_repeat; cl11982 398527003021 RHS Repeat; Region: RHS_repeat; cl11982 398527003022 RHS Repeat; Region: RHS_repeat; cl11982 398527003023 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527003024 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398527003025 conserved cys residue [active] 398527003026 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398527003027 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527003028 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 398527003029 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 398527003030 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 398527003031 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 398527003032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003033 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 398527003034 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 398527003035 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527003036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003037 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 398527003038 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 398527003039 benzoate transport; Region: 2A0115; TIGR00895 398527003040 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527003041 putative substrate translocation pore; other site 398527003042 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527003043 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 398527003044 catalytic residue [active] 398527003045 Cupin domain; Region: Cupin_2; cl09118 398527003046 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527003047 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398527003048 choline dehydrogenase; Validated; Region: PRK02106 398527003049 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527003050 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527003051 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 398527003052 tetrameric interface [polypeptide binding]; other site 398527003053 NAD binding site [chemical binding]; other site 398527003054 catalytic residues [active] 398527003055 transcriptional regulator BetI; Validated; Region: PRK00767 398527003056 Helix-turn-helix domains; Region: HTH; cl00088 398527003057 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 398527003058 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 398527003059 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 398527003060 NAD binding site [chemical binding]; other site 398527003061 catalytic Zn binding site [ion binding]; other site 398527003062 structural Zn binding site [ion binding]; other site 398527003063 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527003064 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398527003065 conserved cys residue [active] 398527003066 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527003067 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 398527003068 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 398527003069 dimer interface [polypeptide binding]; other site 398527003070 active site 398527003071 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398527003072 folate binding site [chemical binding]; other site 398527003073 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 398527003074 active site 398527003075 dimer interface [polypeptide binding]; other site 398527003076 Heme NO binding; Region: HNOB; cl15268 398527003077 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 398527003078 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 398527003079 putative active site [active] 398527003080 putative FMN binding site [chemical binding]; other site 398527003081 putative substrate binding site [chemical binding]; other site 398527003082 putative catalytic residue [active] 398527003083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003084 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 398527003085 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398527003086 Cysteine-rich domain; Region: CCG; pfam02754 398527003087 Cysteine-rich domain; Region: CCG; pfam02754 398527003088 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 398527003089 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398527003090 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 398527003091 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398527003092 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 398527003093 [2Fe-2S] cluster binding site [ion binding]; other site 398527003094 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 398527003095 putative alpha subunit interface [polypeptide binding]; other site 398527003096 putative active site [active] 398527003097 putative substrate binding site [chemical binding]; other site 398527003098 Fe binding site [ion binding]; other site 398527003099 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398527003100 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 398527003101 FAD binding pocket [chemical binding]; other site 398527003102 FAD binding motif [chemical binding]; other site 398527003103 phosphate binding motif [ion binding]; other site 398527003104 beta-alpha-beta structure motif; other site 398527003105 NAD binding pocket [chemical binding]; other site 398527003106 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527003107 catalytic loop [active] 398527003108 iron binding site [ion binding]; other site 398527003109 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 398527003110 NMT1-like family; Region: NMT1_2; cl15260 398527003111 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 398527003112 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 398527003113 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 398527003114 putative active site [active] 398527003115 putative substrate binding site [chemical binding]; other site 398527003116 putative cosubstrate binding site; other site 398527003117 catalytic site [active] 398527003118 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 398527003119 Helix-turn-helix domains; Region: HTH; cl00088 398527003120 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527003121 dimerization interface [polypeptide binding]; other site 398527003122 substrate binding pocket [chemical binding]; other site 398527003123 choline-sulfatase; Region: chol_sulfatase; TIGR03417 398527003124 Sulfatase; Region: Sulfatase; cl10460 398527003125 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 398527003126 NMT1-like family; Region: NMT1_2; cl15260 398527003127 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 398527003128 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527003129 trimer interface [polypeptide binding]; other site 398527003130 eyelet of channel; other site 398527003131 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527003132 Helix-turn-helix domains; Region: HTH; cl00088 398527003133 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527003134 putative effector binding pocket; other site 398527003135 dimerization interface [polypeptide binding]; other site 398527003136 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527003137 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 398527003138 putative C-terminal domain interface [polypeptide binding]; other site 398527003139 putative GSH binding site (G-site) [chemical binding]; other site 398527003140 putative dimer interface [polypeptide binding]; other site 398527003141 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 398527003142 putative N-terminal domain interface [polypeptide binding]; other site 398527003143 putative dimer interface [polypeptide binding]; other site 398527003144 putative substrate binding pocket (H-site) [chemical binding]; other site 398527003145 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398527003146 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398527003147 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398527003148 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 398527003149 FAD binding pocket [chemical binding]; other site 398527003150 FAD binding motif [chemical binding]; other site 398527003151 phosphate binding motif [ion binding]; other site 398527003152 beta-alpha-beta structure motif; other site 398527003153 NAD binding pocket [chemical binding]; other site 398527003154 Heme binding pocket [chemical binding]; other site 398527003155 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527003156 catalytic loop [active] 398527003157 iron binding site [ion binding]; other site 398527003158 Epoxide hydrolase N terminus; Region: EHN; pfam06441 398527003159 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 398527003160 Helix-turn-helix domains; Region: HTH; cl00088 398527003161 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398527003162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527003163 Coenzyme A binding pocket [chemical binding]; other site 398527003164 Cache domain; Region: Cache_1; pfam02743 398527003165 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527003166 metal binding site [ion binding]; metal-binding site 398527003167 active site 398527003168 I-site; other site 398527003169 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527003170 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398527003171 conserved cys residue [active] 398527003172 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527003173 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 398527003174 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 398527003175 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 398527003176 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 398527003177 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 398527003178 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 398527003179 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 398527003180 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 398527003181 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398527003182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527003183 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 398527003184 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 398527003185 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527003186 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 398527003187 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 398527003188 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398527003189 Sulfatase; Region: Sulfatase; cl10460 398527003190 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 398527003191 AMP-binding enzyme; Region: AMP-binding; cl15778 398527003192 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 398527003193 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527003194 DNA binding residues [nucleotide binding] 398527003195 dimerization interface [polypeptide binding]; other site 398527003196 enoyl-CoA hydratase; Provisional; Region: PRK06688 398527003197 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527003198 substrate binding site [chemical binding]; other site 398527003199 oxyanion hole (OAH) forming residues; other site 398527003200 trimer interface [polypeptide binding]; other site 398527003201 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 398527003202 lipid-transfer protein; Provisional; Region: PRK08256 398527003203 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 398527003204 active site 398527003205 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527003206 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527003207 active site 398527003208 lipid-transfer protein; Provisional; Region: PRK08256 398527003209 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 398527003210 active site 398527003211 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 398527003212 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 398527003213 FAD binding site [chemical binding]; other site 398527003214 substrate binding site [chemical binding]; other site 398527003215 catalytic base [active] 398527003216 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 398527003217 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398527003218 active site 398527003219 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 398527003220 putative active site [active] 398527003221 putative catalytic site [active] 398527003222 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527003223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003224 NAD(P) binding site [chemical binding]; other site 398527003225 active site 398527003226 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527003227 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527003228 active site 398527003229 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527003230 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527003231 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527003232 trimer interface [polypeptide binding]; other site 398527003233 eyelet of channel; other site 398527003234 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527003235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003236 NAD(P) binding site [chemical binding]; other site 398527003237 active site 398527003238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 398527003239 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 398527003240 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 398527003241 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 398527003242 substrate binding site [chemical binding]; other site 398527003243 catalytic Zn binding site [ion binding]; other site 398527003244 NAD binding site [chemical binding]; other site 398527003245 structural Zn binding site [ion binding]; other site 398527003246 dimer interface [polypeptide binding]; other site 398527003247 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 398527003248 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 398527003249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003250 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 398527003251 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 398527003252 catalytic residue [active] 398527003253 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527003254 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527003255 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527003256 putative substrate translocation pore; other site 398527003257 hypothetical protein; Provisional; Region: PRK07079 398527003258 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 398527003259 metal binding site [ion binding]; metal-binding site 398527003260 putative dimer interface [polypeptide binding]; other site 398527003261 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527003262 Helix-turn-helix domains; Region: HTH; cl00088 398527003263 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527003264 dimerization interface [polypeptide binding]; other site 398527003265 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 398527003266 FMN binding site [chemical binding]; other site 398527003267 active site 398527003268 substrate binding site [chemical binding]; other site 398527003269 catalytic residue [active] 398527003270 Uncharacterized conserved protein [Function unknown]; Region: COG2128 398527003271 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527003272 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527003273 Helix-turn-helix domains; Region: HTH; cl00088 398527003274 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527003275 putative effector binding pocket; other site 398527003276 dimerization interface [polypeptide binding]; other site 398527003277 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 398527003278 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 398527003279 Protein of unknown function (DUF692); Region: DUF692; cl01263 398527003280 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 398527003281 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 398527003282 RNA polymerase sigma factor; Provisional; Region: PRK12536 398527003283 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527003284 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527003285 DNA binding residues [nucleotide binding] 398527003286 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527003287 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 398527003288 C-terminal domain interface [polypeptide binding]; other site 398527003289 GSH binding site (G-site) [chemical binding]; other site 398527003290 dimer interface [polypeptide binding]; other site 398527003291 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398527003292 N-terminal domain interface [polypeptide binding]; other site 398527003293 dimer interface [polypeptide binding]; other site 398527003294 substrate binding pocket (H-site) [chemical binding]; other site 398527003295 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527003296 Helix-turn-helix domains; Region: HTH; cl00088 398527003297 Flagellin N-methylase; Region: FliB; cl00497 398527003298 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 398527003299 catalytic residues [active] 398527003300 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398527003301 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398527003302 Zn2+ binding site [ion binding]; other site 398527003303 Mg2+ binding site [ion binding]; other site 398527003304 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 398527003305 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398527003306 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 398527003307 DsbD alpha interface [polypeptide binding]; other site 398527003308 catalytic residues [active] 398527003309 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 398527003310 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 398527003311 putative catalytic residues [active] 398527003312 RNA polymerase sigma factor; Provisional; Region: PRK12536 398527003313 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527003314 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527003315 DNA binding residues [nucleotide binding] 398527003316 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 398527003317 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527003318 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398527003319 active site 398527003320 nucleophile elbow; other site 398527003321 DoxX; Region: DoxX; cl00976 398527003322 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 398527003323 DoxX; Region: DoxX; cl00976 398527003324 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398527003325 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527003326 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 398527003327 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527003328 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527003329 Walker A motif; other site 398527003330 ATP binding site [chemical binding]; other site 398527003331 Walker B motif; other site 398527003332 arginine finger; other site 398527003333 Helix-turn-helix domains; Region: HTH; cl00088 398527003334 Protein of unknown function, DUF485; Region: DUF485; cl01231 398527003335 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398527003336 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398527003337 Na binding site [ion binding]; other site 398527003338 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398527003339 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527003340 motif II; other site 398527003341 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 398527003342 putative catalytic residues [active] 398527003343 EamA-like transporter family; Region: EamA; cl01037 398527003344 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398527003345 EamA-like transporter family; Region: EamA; cl01037 398527003346 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 398527003347 C-terminal domain interface [polypeptide binding]; other site 398527003348 GSH binding site (G-site) [chemical binding]; other site 398527003349 dimer interface [polypeptide binding]; other site 398527003350 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398527003351 substrate binding pocket (H-site) [chemical binding]; other site 398527003352 N-terminal domain interface [polypeptide binding]; other site 398527003353 putative S-transferase; Provisional; Region: PRK11752 398527003354 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 398527003355 C-terminal domain interface [polypeptide binding]; other site 398527003356 GSH binding site (G-site) [chemical binding]; other site 398527003357 dimer interface [polypeptide binding]; other site 398527003358 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 398527003359 dimer interface [polypeptide binding]; other site 398527003360 N-terminal domain interface [polypeptide binding]; other site 398527003361 active site 398527003362 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 398527003363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003364 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398527003365 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527003366 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398527003367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003368 Dehydratase family; Region: ILVD_EDD; cl00340 398527003369 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527003370 classical (c) SDRs; Region: SDR_c; cd05233 398527003371 NAD(P) binding site [chemical binding]; other site 398527003372 active site 398527003373 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398527003374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527003375 putative substrate translocation pore; other site 398527003376 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527003377 Helix-turn-helix domains; Region: HTH; cl00088 398527003378 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527003379 dimerization interface [polypeptide binding]; other site 398527003380 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 398527003381 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 398527003382 tetramer interface [polypeptide binding]; other site 398527003383 active site 398527003384 Mg2+/Mn2+ binding site [ion binding]; other site 398527003385 benzoate transport; Region: 2A0115; TIGR00895 398527003386 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527003387 putative substrate translocation pore; other site 398527003388 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527003389 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527003390 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527003391 DNA-binding site [nucleotide binding]; DNA binding site 398527003392 FCD domain; Region: FCD; cl11656 398527003393 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 398527003394 DinB superfamily; Region: DinB_2; pfam12867 398527003395 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527003396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527003397 DNA-binding site [nucleotide binding]; DNA binding site 398527003398 FCD domain; Region: FCD; cl11656 398527003399 enoyl-CoA hydratase; Provisional; Region: PRK06494 398527003400 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527003401 substrate binding site [chemical binding]; other site 398527003402 trimer interface [polypeptide binding]; other site 398527003403 oxyanion hole (OAH) forming residues; other site 398527003404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527003405 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 398527003406 putative substrate translocation pore; other site 398527003407 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527003408 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 398527003409 NAD(P) binding site [chemical binding]; other site 398527003410 catalytic residues [active] 398527003411 Helix-turn-helix domains; Region: HTH; cl00088 398527003412 Winged helix-turn helix; Region: HTH_29; pfam13551 398527003413 Helix-turn-helix domains; Region: HTH; cl00088 398527003414 Integrase core domain; Region: rve; cl01316 398527003415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 398527003416 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 398527003417 active site 398527003418 catalytic residues [active] 398527003419 DNA binding site [nucleotide binding] 398527003420 Int/Topo IB signature motif; other site 398527003421 Winged helix-turn helix; Region: HTH_29; pfam13551 398527003422 Integrase core domain; Region: rve; cl01316 398527003423 Integrase core domain; Region: rve_3; cl15866 398527003424 AAA domain; Region: AAA_22; pfam13401 398527003425 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527003426 Walker A motif; other site 398527003427 ATP binding site [chemical binding]; other site 398527003428 Walker B motif; other site 398527003429 arginine finger; other site 398527003430 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527003431 active site 398527003432 Int/Topo IB signature motif; other site 398527003433 DNA binding site [nucleotide binding] 398527003434 Phosphoesterase family; Region: Phosphoesterase; cl15450 398527003435 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398527003436 Helix-turn-helix domains; Region: HTH; cl00088 398527003437 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527003438 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527003439 TM-ABC transporter signature motif; other site 398527003440 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527003441 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527003442 Walker A/P-loop; other site 398527003443 ATP binding site [chemical binding]; other site 398527003444 Q-loop/lid; other site 398527003445 ABC transporter signature motif; other site 398527003446 Walker B; other site 398527003447 D-loop; other site 398527003448 H-loop/switch region; other site 398527003449 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527003450 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 398527003451 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527003452 ligand binding site [chemical binding]; other site 398527003453 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527003454 TM-ABC transporter signature motif; other site 398527003455 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398527003456 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 398527003457 substrate binding site [chemical binding]; other site 398527003458 dimer interface [polypeptide binding]; other site 398527003459 ATP binding site [chemical binding]; other site 398527003460 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398527003461 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527003462 NAD(P) binding site [chemical binding]; other site 398527003463 catalytic residues [active] 398527003464 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398527003465 NAD(P) binding site [chemical binding]; other site 398527003466 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 398527003467 intersubunit interface [polypeptide binding]; other site 398527003468 active site 398527003469 catalytic residue [active] 398527003470 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527003471 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527003472 Walker A/P-loop; other site 398527003473 ATP binding site [chemical binding]; other site 398527003474 Q-loop/lid; other site 398527003475 ABC transporter signature motif; other site 398527003476 Walker B; other site 398527003477 D-loop; other site 398527003478 H-loop/switch region; other site 398527003479 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527003480 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 398527003481 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527003482 TM-ABC transporter signature motif; other site 398527003483 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_7; cd06316 398527003484 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527003485 putative ligand binding site [chemical binding]; other site 398527003486 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527003487 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398527003488 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398527003489 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527003490 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527003491 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527003492 Helix-turn-helix domains; Region: HTH; cl00088 398527003493 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527003494 Helix-turn-helix domains; Region: HTH; cl00088 398527003495 Domain of Unknown Function (DUF1521); Region: DUF1521; pfam07481 398527003496 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 398527003497 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527003498 Walker A motif; other site 398527003499 ATP binding site [chemical binding]; other site 398527003500 Walker B motif; other site 398527003501 FHIPEP family; Region: FHIPEP; pfam00771 398527003502 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 398527003503 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 398527003504 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 398527003505 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 398527003506 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 398527003507 FliP family; Region: FliP; cl00593 398527003508 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 398527003509 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 398527003510 Flagellar assembly protein FliH; Region: FliH; pfam02108 398527003511 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 398527003512 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 398527003513 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398527003514 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398527003515 Ribbon-helix-helix domain; Region: RHH_4; cl01775 398527003516 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398527003517 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527003518 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527003519 dimer interface [polypeptide binding]; other site 398527003520 phosphorylation site [posttranslational modification] 398527003521 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527003522 ATP binding site [chemical binding]; other site 398527003523 Mg2+ binding site [ion binding]; other site 398527003524 G-X-G motif; other site 398527003525 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398527003526 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527003527 active site 398527003528 phosphorylation site [posttranslational modification] 398527003529 intermolecular recognition site; other site 398527003530 dimerization interface [polypeptide binding]; other site 398527003531 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527003532 DNA binding site [nucleotide binding] 398527003533 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398527003534 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 398527003535 Walker A/P-loop; other site 398527003536 ATP binding site [chemical binding]; other site 398527003537 Q-loop/lid; other site 398527003538 ABC transporter signature motif; other site 398527003539 Walker B; other site 398527003540 D-loop; other site 398527003541 H-loop/switch region; other site 398527003542 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 398527003543 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398527003544 Amidase; Region: Amidase; cl11426 398527003545 urea carboxylase; Region: urea_carbox; TIGR02712 398527003546 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398527003547 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527003548 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 398527003549 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 398527003550 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 398527003551 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 398527003552 carboxyltransferase (CT) interaction site; other site 398527003553 biotinylation site [posttranslational modification]; other site 398527003554 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 398527003555 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 398527003556 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 398527003557 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 398527003558 oxidase reductase; Provisional; Region: PTZ00273 398527003559 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 398527003560 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527003561 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 398527003562 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527003563 NMT1-like family; Region: NMT1_2; cl15260 398527003564 rod shape-determining protein MreB; Provisional; Region: PRK13927 398527003565 Cell division protein FtsA; Region: FtsA; cl11496 398527003566 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527003567 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527003568 DNA-binding site [nucleotide binding]; DNA binding site 398527003569 FCD domain; Region: FCD; cl11656 398527003570 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527003571 Isochorismatase family; Region: Isochorismatase; pfam00857 398527003572 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 398527003573 catalytic triad [active] 398527003574 conserved cis-peptide bond; other site 398527003575 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 398527003576 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527003577 Walker A/P-loop; other site 398527003578 ATP binding site [chemical binding]; other site 398527003579 Q-loop/lid; other site 398527003580 ABC transporter signature motif; other site 398527003581 Walker B; other site 398527003582 D-loop; other site 398527003583 H-loop/switch region; other site 398527003584 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527003585 Isochorismatase family; Region: Isochorismatase; pfam00857 398527003586 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 398527003587 catalytic triad [active] 398527003588 conserved cis-peptide bond; other site 398527003589 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 398527003590 TM-ABC transporter signature motif; other site 398527003591 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 398527003592 TM-ABC transporter signature motif; other site 398527003593 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 398527003594 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 398527003595 putative ligand binding site [chemical binding]; other site 398527003596 allophanate hydrolase; Provisional; Region: PRK08186 398527003597 Amidase; Region: Amidase; cl11426 398527003598 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 398527003599 Helix-turn-helix domains; Region: HTH; cl00088 398527003600 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 398527003601 TM-ABC transporter signature motif; other site 398527003602 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 398527003603 TM-ABC transporter signature motif; other site 398527003604 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 398527003605 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527003606 Walker A/P-loop; other site 398527003607 ATP binding site [chemical binding]; other site 398527003608 Q-loop/lid; other site 398527003609 ABC transporter signature motif; other site 398527003610 Walker B; other site 398527003611 D-loop; other site 398527003612 H-loop/switch region; other site 398527003613 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527003614 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 398527003615 ligand binding site [chemical binding]; other site 398527003616 Isochorismatase family; Region: Isochorismatase; pfam00857 398527003617 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 398527003618 catalytic triad [active] 398527003619 conserved cis-peptide bond; other site 398527003620 Amidase; Region: Amidase; cl11426 398527003621 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 398527003622 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398527003623 Flavin Reductases; Region: FlaRed; cl00801 398527003624 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527003625 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527003626 DNA-binding site [nucleotide binding]; DNA binding site 398527003627 FCD domain; Region: FCD; cl11656 398527003628 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 398527003629 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 398527003630 putative active site [active] 398527003631 putative catalytic site [active] 398527003632 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527003633 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527003634 Walker A/P-loop; other site 398527003635 ATP binding site [chemical binding]; other site 398527003636 Q-loop/lid; other site 398527003637 ABC transporter signature motif; other site 398527003638 Walker B; other site 398527003639 D-loop; other site 398527003640 H-loop/switch region; other site 398527003641 TOBE domain; Region: TOBE_2; cl01440 398527003642 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398527003643 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527003644 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527003645 dimer interface [polypeptide binding]; other site 398527003646 conserved gate region; other site 398527003647 putative PBP binding loops; other site 398527003648 ABC-ATPase subunit interface; other site 398527003649 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527003650 dimer interface [polypeptide binding]; other site 398527003651 conserved gate region; other site 398527003652 putative PBP binding loops; other site 398527003653 ABC-ATPase subunit interface; other site 398527003654 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 398527003655 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 398527003656 Flavin binding site [chemical binding]; other site 398527003657 Esterase/lipase [General function prediction only]; Region: COG1647 398527003658 MltA-interacting protein MipA; Region: MipA; cl01504 398527003659 hypothetical protein; Provisional; Region: PRK11239 398527003660 Protein of unknown function, DUF480; Region: DUF480; cl01209 398527003661 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 398527003662 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527003663 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 398527003664 sequence-specific DNA binding site [nucleotide binding]; other site 398527003665 salt bridge; other site 398527003666 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527003667 Coenzyme A binding pocket [chemical binding]; other site 398527003668 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398527003669 CoenzymeA binding site [chemical binding]; other site 398527003670 subunit interaction site [polypeptide binding]; other site 398527003671 PHB binding site; other site 398527003672 LysE type translocator; Region: LysE; cl00565 398527003673 BON domain; Region: BON; cl02771 398527003674 Acetokinase family; Region: Acetate_kinase; cl01029 398527003675 acetate kinase; Region: ackA; TIGR00016 398527003676 putative phosphoketolase; Provisional; Region: PRK05261 398527003677 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 398527003678 TPP-binding site; other site 398527003679 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 398527003680 XFP C-terminal domain; Region: XFP_C; pfam09363 398527003681 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 398527003682 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 398527003683 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398527003684 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 398527003685 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527003686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003687 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 398527003688 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527003689 sugar efflux transporter; Region: 2A0120; TIGR00899 398527003690 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 398527003691 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 398527003692 catalytic residues [active] 398527003693 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 398527003694 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527003695 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398527003696 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527003697 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398527003698 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527003699 ATP binding site [chemical binding]; other site 398527003700 Mg2+ binding site [ion binding]; other site 398527003701 G-X-G motif; other site 398527003702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527003703 active site 398527003704 phosphorylation site [posttranslational modification] 398527003705 intermolecular recognition site; other site 398527003706 dimerization interface [polypeptide binding]; other site 398527003707 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 398527003708 iron-sulfur cluster [ion binding]; other site 398527003709 [2Fe-2S] cluster binding site [ion binding]; other site 398527003710 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 398527003711 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527003712 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 398527003713 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398527003714 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 398527003715 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 398527003716 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 398527003717 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 398527003718 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 398527003719 active site 398527003720 catalytic site [active] 398527003721 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 398527003722 Response regulator receiver domain; Region: Response_reg; pfam00072 398527003723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527003724 active site 398527003725 phosphorylation site [posttranslational modification] 398527003726 intermolecular recognition site; other site 398527003727 dimerization interface [polypeptide binding]; other site 398527003728 ATP-dependent DNA ligase; Validated; Region: PRK09247 398527003729 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 398527003730 active site 398527003731 DNA binding site [nucleotide binding] 398527003732 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 398527003733 DNA binding site [nucleotide binding] 398527003734 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 398527003735 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527003736 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 398527003737 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527003738 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527003739 PAS domain; Region: PAS_9; pfam13426 398527003740 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527003741 PAS fold; Region: PAS_3; pfam08447 398527003742 putative active site [active] 398527003743 heme pocket [chemical binding]; other site 398527003744 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398527003745 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527003746 putative active site [active] 398527003747 heme pocket [chemical binding]; other site 398527003748 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527003749 dimer interface [polypeptide binding]; other site 398527003750 phosphorylation site [posttranslational modification] 398527003751 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527003752 ATP binding site [chemical binding]; other site 398527003753 Mg2+ binding site [ion binding]; other site 398527003754 G-X-G motif; other site 398527003755 Response regulator receiver domain; Region: Response_reg; pfam00072 398527003756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527003757 active site 398527003758 phosphorylation site [posttranslational modification] 398527003759 intermolecular recognition site; other site 398527003760 dimerization interface [polypeptide binding]; other site 398527003761 Predicted ATPase [General function prediction only]; Region: COG1485 398527003762 transketolase; Reviewed; Region: PRK05899 398527003763 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 398527003764 TPP-binding site [chemical binding]; other site 398527003765 dimer interface [polypeptide binding]; other site 398527003766 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 398527003767 PYR/PP interface [polypeptide binding]; other site 398527003768 dimer interface [polypeptide binding]; other site 398527003769 TPP binding site [chemical binding]; other site 398527003770 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398527003771 Cupin domain; Region: Cupin_2; cl09118 398527003772 anti-TRAP (AT) protein specific to Bacilli; Region: anti-TRAP; cd10748 398527003773 TRAP binding interface [polypeptide binding]; other site 398527003774 Zn binding site [ion binding]; other site 398527003775 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 398527003776 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 398527003777 putative molybdopterin cofactor binding site [chemical binding]; other site 398527003778 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 398527003779 putative molybdopterin cofactor binding site; other site 398527003780 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527003781 trimer interface [polypeptide binding]; other site 398527003782 eyelet of channel; other site 398527003783 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527003784 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 398527003785 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 398527003786 metal ion-dependent adhesion site (MIDAS); other site 398527003787 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 398527003788 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 398527003789 putative active site [active] 398527003790 putative dimer interface [polypeptide binding]; other site 398527003791 MarC family integral membrane protein; Region: MarC; cl00919 398527003792 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 398527003793 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398527003794 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 398527003795 Na binding site [ion binding]; other site 398527003796 glycogen synthase; Provisional; Region: glgA; PRK00654 398527003797 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 398527003798 ADP-binding pocket [chemical binding]; other site 398527003799 homodimer interface [polypeptide binding]; other site 398527003800 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527003801 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398527003802 active site 398527003803 metal binding site [ion binding]; metal-binding site 398527003804 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 398527003805 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527003806 C-terminal domain interface [polypeptide binding]; other site 398527003807 GSH binding site (G-site) [chemical binding]; other site 398527003808 dimer interface [polypeptide binding]; other site 398527003809 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 398527003810 N-terminal domain interface [polypeptide binding]; other site 398527003811 dimer interface [polypeptide binding]; other site 398527003812 substrate binding pocket (H-site) [chemical binding]; other site 398527003813 Phytochelatin synthase; Region: Phytochelatin; pfam05023 398527003814 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 398527003815 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527003816 metal binding site [ion binding]; metal-binding site 398527003817 active site 398527003818 I-site; other site 398527003819 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 398527003820 FMN binding site [chemical binding]; other site 398527003821 active site 398527003822 substrate binding site [chemical binding]; other site 398527003823 catalytic residue [active] 398527003824 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 398527003825 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398527003826 putative NAD(P) binding site [chemical binding]; other site 398527003827 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527003828 Helix-turn-helix domains; Region: HTH; cl00088 398527003829 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527003830 putative effector binding pocket; other site 398527003831 dimerization interface [polypeptide binding]; other site 398527003832 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 398527003833 putative catalytic residues [active] 398527003834 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 398527003835 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398527003836 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398527003837 active site 398527003838 metal binding site [ion binding]; metal-binding site 398527003839 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 398527003840 classical (c) SDRs; Region: SDR_c; cd05233 398527003841 NAD(P) binding site [chemical binding]; other site 398527003842 active site 398527003843 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527003844 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 398527003845 putative C-terminal domain interface [polypeptide binding]; other site 398527003846 putative GSH binding site (G-site) [chemical binding]; other site 398527003847 putative dimer interface [polypeptide binding]; other site 398527003848 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 398527003849 putative N-terminal domain interface [polypeptide binding]; other site 398527003850 putative dimer interface [polypeptide binding]; other site 398527003851 putative substrate binding pocket (H-site) [chemical binding]; other site 398527003852 Peptidase family M1; Region: Peptidase_M1; pfam01433 398527003853 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 398527003854 Zn binding site [ion binding]; other site 398527003855 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527003856 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398527003857 active site 398527003858 catalytic tetrad [active] 398527003859 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527003860 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527003861 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 398527003862 N-terminal domain interface [polypeptide binding]; other site 398527003863 dimer interface [polypeptide binding]; other site 398527003864 substrate binding pocket (H-site) [chemical binding]; other site 398527003865 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 398527003866 putative hydrophobic ligand binding site [chemical binding]; other site 398527003867 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527003868 dimerization interface [polypeptide binding]; other site 398527003869 putative DNA binding site [nucleotide binding]; other site 398527003870 putative Zn2+ binding site [ion binding]; other site 398527003871 transcriptional regulator; Provisional; Region: PRK10632 398527003872 Helix-turn-helix domains; Region: HTH; cl00088 398527003873 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 398527003874 putative effector binding pocket; other site 398527003875 putative dimerization interface [polypeptide binding]; other site 398527003876 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 398527003877 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527003878 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527003879 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 398527003880 dimerization interface [polypeptide binding]; other site 398527003881 ligand binding site [chemical binding]; other site 398527003882 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398527003883 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527003884 DNA-binding site [nucleotide binding]; DNA binding site 398527003885 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527003886 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527003887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527003888 homodimer interface [polypeptide binding]; other site 398527003889 catalytic residue [active] 398527003890 TIGR03118 family protein; Region: PEPCTERM_chp_1 398527003891 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398527003892 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527003893 Walker A motif; other site 398527003894 ATP binding site [chemical binding]; other site 398527003895 Walker B motif; other site 398527003896 arginine finger; other site 398527003897 Helix-turn-helix domains; Region: HTH; cl00088 398527003898 Epoxide hydrolase N terminus; Region: EHN; pfam06441 398527003899 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527003900 LrgA family; Region: LrgA; cl00608 398527003901 LrgB-like family; Region: LrgB; cl00596 398527003902 Survival protein SurE; Region: SurE; cl00448 398527003903 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 398527003904 EamA-like transporter family; Region: EamA; cl01037 398527003905 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 398527003906 trehalase; Provisional; Region: treF; PRK13270 398527003907 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527003908 carbonic anhydrase; Provisional; Region: PRK15219 398527003909 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 398527003910 active site clefts [active] 398527003911 zinc binding site [ion binding]; other site 398527003912 dimer interface [polypeptide binding]; other site 398527003913 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 398527003914 active site clefts [active] 398527003915 zinc binding site [ion binding]; other site 398527003916 dimer interface [polypeptide binding]; other site 398527003917 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527003918 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527003919 trimer interface [polypeptide binding]; other site 398527003920 eyelet of channel; other site 398527003921 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398527003922 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527003923 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527003924 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527003925 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 398527003926 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 398527003927 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527003928 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527003929 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 398527003930 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527003931 Helix-turn-helix domains; Region: HTH; cl00088 398527003932 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527003933 dimerization interface [polypeptide binding]; other site 398527003934 Arginase family; Region: Arginase; cl00306 398527003935 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 398527003936 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527003937 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 398527003938 Helix-turn-helix domains; Region: HTH; cl00088 398527003939 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 398527003940 putative dimerization interface [polypeptide binding]; other site 398527003941 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 398527003942 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 398527003943 THF binding site; other site 398527003944 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 398527003945 substrate binding site [chemical binding]; other site 398527003946 THF binding site; other site 398527003947 zinc-binding site [ion binding]; other site 398527003948 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 398527003949 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 398527003950 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 398527003951 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 398527003952 CbiD; Region: CbiD; cl00828 398527003953 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 398527003954 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 398527003955 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527003956 precorrin-3B synthase; Region: CobG; TIGR02435 398527003957 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398527003958 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398527003959 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 398527003960 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 398527003961 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 398527003962 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 398527003963 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 398527003964 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 398527003965 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 398527003966 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 398527003967 Protein of unknown function (DUF796); Region: DUF796; cl01226 398527003968 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 398527003969 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527003970 Walker A/P-loop; other site 398527003971 ATP binding site [chemical binding]; other site 398527003972 AAA domain; Region: AAA_27; pfam13514 398527003973 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 398527003974 active site 398527003975 metal binding site [ion binding]; metal-binding site 398527003976 DNA binding site [nucleotide binding] 398527003977 Protein of unknown function (DUF445); Region: DUF445; pfam04286 398527003978 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398527003979 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 398527003980 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 398527003981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003982 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398527003983 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527003984 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398527003985 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 398527003986 intersubunit interface [polypeptide binding]; other site 398527003987 active site 398527003988 Zn2+ binding site [ion binding]; other site 398527003989 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 398527003990 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527003991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527003992 homodimer interface [polypeptide binding]; other site 398527003993 catalytic residue [active] 398527003994 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527003995 Helix-turn-helix domains; Region: HTH; cl00088 398527003996 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 398527003997 putative dimerization interface [polypeptide binding]; other site 398527003998 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527003999 DNA binding residues [nucleotide binding] 398527004000 dimerization interface [polypeptide binding]; other site 398527004001 Response regulator receiver domain; Region: Response_reg; pfam00072 398527004002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527004003 active site 398527004004 phosphorylation site [posttranslational modification] 398527004005 intermolecular recognition site; other site 398527004006 dimerization interface [polypeptide binding]; other site 398527004007 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527004008 dimer interface [polypeptide binding]; other site 398527004009 phosphorylation site [posttranslational modification] 398527004010 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527004011 ATP binding site [chemical binding]; other site 398527004012 Mg2+ binding site [ion binding]; other site 398527004013 G-X-G motif; other site 398527004014 CheB methylesterase; Region: CheB_methylest; pfam01339 398527004015 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 398527004016 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398527004017 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527004018 CHASE3 domain; Region: CHASE3; cl05000 398527004019 GAF domain; Region: GAF_2; pfam13185 398527004020 GAF domain; Region: GAF; cl15785 398527004021 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 398527004022 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527004023 dimer interface [polypeptide binding]; other site 398527004024 phosphorylation site [posttranslational modification] 398527004025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527004026 ATP binding site [chemical binding]; other site 398527004027 Mg2+ binding site [ion binding]; other site 398527004028 G-X-G motif; other site 398527004029 Response regulator receiver domain; Region: Response_reg; pfam00072 398527004030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527004031 active site 398527004032 phosphorylation site [posttranslational modification] 398527004033 intermolecular recognition site; other site 398527004034 dimerization interface [polypeptide binding]; other site 398527004035 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398527004036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527004037 active site 398527004038 phosphorylation site [posttranslational modification] 398527004039 intermolecular recognition site; other site 398527004040 dimerization interface [polypeptide binding]; other site 398527004041 Response regulator receiver domain; Region: Response_reg; pfam00072 398527004042 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527004043 active site 398527004044 phosphorylation site [posttranslational modification] 398527004045 intermolecular recognition site; other site 398527004046 dimerization interface [polypeptide binding]; other site 398527004047 hydroperoxidase II; Provisional; Region: katE; PRK11249 398527004048 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 398527004049 tetramer interface [polypeptide binding]; other site 398527004050 heme binding pocket [chemical binding]; other site 398527004051 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 398527004052 domain interactions; other site 398527004053 MltA-interacting protein MipA; Region: MipA; cl01504 398527004054 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 398527004055 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 398527004056 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 398527004057 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 398527004058 Helix-turn-helix domains; Region: HTH; cl00088 398527004059 AsnC family; Region: AsnC_trans_reg; pfam01037 398527004060 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 398527004061 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 398527004062 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527004063 catalytic residue [active] 398527004064 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527004065 Helix-turn-helix domains; Region: HTH; cl00088 398527004066 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527004067 putative effector binding pocket; other site 398527004068 dimerization interface [polypeptide binding]; other site 398527004069 Pirin-related protein [General function prediction only]; Region: COG1741 398527004070 Cupin domain; Region: Cupin_2; cl09118 398527004071 DoxX; Region: DoxX; cl00976 398527004072 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 398527004073 Fatty acid desaturase; Region: FA_desaturase; pfam00487 398527004074 Di-iron ligands [ion binding]; other site 398527004075 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 398527004076 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 398527004077 catalytic residue [active] 398527004078 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 398527004079 catalytic residues [active] 398527004080 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527004081 peroxiredoxin; Region: AhpC; TIGR03137 398527004082 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 398527004083 dimer interface [polypeptide binding]; other site 398527004084 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398527004085 catalytic triad [active] 398527004086 peroxidatic and resolving cysteines [active] 398527004087 Propionate catabolism activator; Region: PrpR_N; pfam06506 398527004088 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 398527004089 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527004090 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527004091 Walker A motif; other site 398527004092 ATP binding site [chemical binding]; other site 398527004093 Walker B motif; other site 398527004094 Helix-turn-helix domains; Region: HTH; cl00088 398527004095 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 398527004096 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 398527004097 tetramer interface [polypeptide binding]; other site 398527004098 active site 398527004099 Mg2+/Mn2+ binding site [ion binding]; other site 398527004100 putative transporter; Provisional; Region: PRK10504 398527004101 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004102 putative substrate translocation pore; other site 398527004103 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527004104 Coenzyme A binding pocket [chemical binding]; other site 398527004105 Cation efflux family; Region: Cation_efflux; cl00316 398527004106 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 398527004107 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527004108 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527004109 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004110 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527004111 putative substrate translocation pore; other site 398527004112 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004113 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398527004114 Helix-turn-helix domains; Region: HTH; cl00088 398527004115 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 398527004116 dimerization interface [polypeptide binding]; other site 398527004117 substrate binding pocket [chemical binding]; other site 398527004118 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 398527004119 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 398527004120 active site 398527004121 Phospholipid methyltransferase; Region: PEMT; cl00763 398527004122 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 398527004123 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 398527004124 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 398527004125 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398527004126 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527004127 Walker A motif; other site 398527004128 ATP binding site [chemical binding]; other site 398527004129 Walker B motif; other site 398527004130 arginine finger; other site 398527004131 Helix-turn-helix domains; Region: HTH; cl00088 398527004132 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004133 putative substrate translocation pore; other site 398527004134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004135 NIPSNAP; Region: NIPSNAP; pfam07978 398527004136 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398527004137 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 398527004138 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527004139 DEAD_2; Region: DEAD_2; pfam06733 398527004140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527004141 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 398527004142 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527004143 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004144 D-galactonate transporter; Region: 2A0114; TIGR00893 398527004145 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 398527004146 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 398527004147 putative active site [active] 398527004148 Zn binding site [ion binding]; other site 398527004149 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527004150 Helix-turn-helix domains; Region: HTH; cl00088 398527004151 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 398527004152 dimerization interface [polypeptide binding]; other site 398527004153 substrate binding pocket [chemical binding]; other site 398527004154 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 398527004155 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 398527004156 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 398527004157 Cysteine-rich domain; Region: CCG; pfam02754 398527004158 Cysteine-rich domain; Region: CCG; pfam02754 398527004159 HipA N-terminal domain; Region: Couple_hipA; cl11853 398527004160 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 398527004161 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398527004162 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398527004163 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527004164 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527004165 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527004166 DNA-binding site [nucleotide binding]; DNA binding site 398527004167 FCD domain; Region: FCD; cl11656 398527004168 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 398527004169 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 398527004170 aspartate aminotransferase; Provisional; Region: PRK05764 398527004171 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527004172 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527004173 homodimer interface [polypeptide binding]; other site 398527004174 catalytic residue [active] 398527004175 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 398527004176 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 398527004177 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 398527004178 periplasmic protein; Provisional; Region: PRK10568 398527004179 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 398527004180 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398527004181 Domain of unknown function (DUF305); Region: DUF305; cl15795 398527004182 intracellular protease, PfpI family; Region: PfpI; TIGR01382 398527004183 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 398527004184 proposed catalytic triad [active] 398527004185 conserved cys residue [active] 398527004186 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 398527004187 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 398527004188 active site 398527004189 DNA binding site [nucleotide binding] 398527004190 Int/Topo IB signature motif; other site 398527004191 catalytic residues [active] 398527004192 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 398527004193 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 398527004194 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398527004195 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398527004196 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 398527004197 Cupin domain; Region: Cupin_2; cl09118 398527004198 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527004199 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527004200 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527004201 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527004202 active site 398527004203 catalytic tetrad [active] 398527004204 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 398527004205 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527004206 ATP binding site [chemical binding]; other site 398527004207 putative Mg++ binding site [ion binding]; other site 398527004208 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527004209 nucleotide binding region [chemical binding]; other site 398527004210 ATP-binding site [chemical binding]; other site 398527004211 DEAD/H associated; Region: DEAD_assoc; pfam08494 398527004212 Predicted transcriptional regulator [Transcription]; Region: COG3355 398527004213 RNase II stability modulator; Provisional; Region: PRK10060 398527004214 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527004215 putative active site [active] 398527004216 heme pocket [chemical binding]; other site 398527004217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527004218 metal binding site [ion binding]; metal-binding site 398527004219 active site 398527004220 I-site; other site 398527004221 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527004222 enoyl-CoA hydratase; Validated; Region: PRK08788 398527004223 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527004224 substrate binding site [chemical binding]; other site 398527004225 oxyanion hole (OAH) forming residues; other site 398527004226 trimer interface [polypeptide binding]; other site 398527004227 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 398527004228 hypothetical protein; Provisional; Region: PRK07907 398527004229 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 398527004230 metal binding site [ion binding]; metal-binding site 398527004231 putative dimer interface [polypeptide binding]; other site 398527004232 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 398527004233 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 398527004234 Heat-labile enterotoxin alpha chain; Region: Enterotoxin_a; pfam01375 398527004235 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004236 putative substrate translocation pore; other site 398527004237 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004238 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527004239 Helix-turn-helix domains; Region: HTH; cl00088 398527004240 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 398527004241 OsmC-like protein; Region: OsmC; cl00767 398527004242 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527004243 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527004244 hypothetical protein; Provisional; Region: PRK07483 398527004245 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527004246 inhibitor-cofactor binding pocket; inhibition site 398527004247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527004248 catalytic residue [active] 398527004249 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398527004250 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398527004251 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398527004252 putative active site [active] 398527004253 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527004254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527004255 DNA-binding site [nucleotide binding]; DNA binding site 398527004256 FCD domain; Region: FCD; cl11656 398527004257 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527004258 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527004259 Walker A/P-loop; other site 398527004260 ATP binding site [chemical binding]; other site 398527004261 Q-loop/lid; other site 398527004262 ABC transporter signature motif; other site 398527004263 Walker B; other site 398527004264 D-loop; other site 398527004265 H-loop/switch region; other site 398527004266 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527004267 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527004268 TM-ABC transporter signature motif; other site 398527004269 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 398527004270 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527004271 putative ligand binding site [chemical binding]; other site 398527004272 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527004273 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527004274 active site 398527004275 catalytic tetrad [active] 398527004276 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398527004277 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527004278 active site 398527004279 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 398527004280 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398527004281 putative NAD(P) binding site [chemical binding]; other site 398527004282 catalytic Zn binding site [ion binding]; other site 398527004283 structural Zn binding site [ion binding]; other site 398527004284 altronate oxidoreductase; Provisional; Region: PRK03643 398527004285 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 398527004286 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 398527004287 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 398527004288 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 398527004289 Domain of unknown function (DUF718); Region: DUF718; cl01281 398527004290 Protein required for attachment to host cells; Region: Host_attach; cl02398 398527004291 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 398527004292 FMN binding site [chemical binding]; other site 398527004293 active site 398527004294 substrate binding site [chemical binding]; other site 398527004295 catalytic residue [active] 398527004296 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 398527004297 NADH(P)-binding; Region: NAD_binding_10; pfam13460 398527004298 NAD(P) binding site [chemical binding]; other site 398527004299 putative active site [active] 398527004300 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 398527004301 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527004302 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527004303 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 398527004304 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 398527004305 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 398527004306 putative dimer interface [polypeptide binding]; other site 398527004307 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 398527004308 Clp amino terminal domain; Region: Clp_N; pfam02861 398527004309 Clp amino terminal domain; Region: Clp_N; pfam02861 398527004310 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527004311 Walker A motif; other site 398527004312 ATP binding site [chemical binding]; other site 398527004313 Walker B motif; other site 398527004314 arginine finger; other site 398527004315 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527004316 Walker A motif; other site 398527004317 ATP binding site [chemical binding]; other site 398527004318 Walker B motif; other site 398527004319 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 398527004320 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; cl09957 398527004321 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 398527004322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004323 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527004324 Phosphate-starvation-inducible E; Region: PsiE; cl01264 398527004325 Flagellin N-methylase; Region: FliB; cl00497 398527004326 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527004327 Helix-turn-helix domains; Region: HTH; cl00088 398527004328 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527004329 putative effector binding pocket; other site 398527004330 dimerization interface [polypeptide binding]; other site 398527004331 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 398527004332 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 398527004333 catalytic residues [active] 398527004334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004335 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004336 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527004337 putative substrate translocation pore; other site 398527004338 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 398527004339 Cytochrome c; Region: Cytochrom_C; cl11414 398527004340 Cytochrome c; Region: Cytochrom_C; cl11414 398527004341 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398527004342 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527004343 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527004344 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398527004345 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527004346 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527004347 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527004348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527004349 Helix-turn-helix domains; Region: HTH; cl00088 398527004350 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 398527004351 substrate binding pocket [chemical binding]; other site 398527004352 dimerization interface [polypeptide binding]; other site 398527004353 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398527004354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004355 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398527004356 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527004357 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398527004358 active site 398527004359 metal binding site [ion binding]; metal-binding site 398527004360 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 398527004361 active site 398527004362 catalytic site [active] 398527004363 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527004364 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527004365 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 398527004366 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398527004367 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398527004368 shikimate binding site; other site 398527004369 NAD(P) binding site [chemical binding]; other site 398527004370 Cache domain; Region: Cache_1; pfam02743 398527004371 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527004372 metal binding site [ion binding]; metal-binding site 398527004373 active site 398527004374 I-site; other site 398527004375 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398527004376 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 398527004377 putative NAD(P) binding site [chemical binding]; other site 398527004378 putative substrate binding site [chemical binding]; other site 398527004379 catalytic Zn binding site [ion binding]; other site 398527004380 structural Zn binding site [ion binding]; other site 398527004381 dimer interface [polypeptide binding]; other site 398527004382 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398527004383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527004384 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527004385 Coenzyme A binding pocket [chemical binding]; other site 398527004386 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398527004387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004388 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 398527004389 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527004390 NAD binding site [chemical binding]; other site 398527004391 catalytic residues [active] 398527004392 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398527004393 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398527004394 metal binding site [ion binding]; metal-binding site 398527004395 putative dimer interface [polypeptide binding]; other site 398527004396 citrate-proton symporter; Provisional; Region: PRK15075 398527004397 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004398 putative substrate translocation pore; other site 398527004399 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398527004400 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527004401 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 398527004402 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398527004403 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527004404 Helix-turn-helix domains; Region: HTH; cl00088 398527004405 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 398527004406 putative dimerization interface [polypeptide binding]; other site 398527004407 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 398527004408 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 398527004409 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 398527004410 dimer interface [polypeptide binding]; other site 398527004411 Citrate synthase; Region: Citrate_synt; pfam00285 398527004412 active site 398527004413 citrylCoA binding site [chemical binding]; other site 398527004414 NADH binding [chemical binding]; other site 398527004415 cationic pore residues; other site 398527004416 oxalacetate/citrate binding site [chemical binding]; other site 398527004417 coenzyme A binding site [chemical binding]; other site 398527004418 catalytic triad [active] 398527004419 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527004420 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 398527004421 nucleophilic elbow; other site 398527004422 catalytic triad; other site 398527004423 rod shape-determining protein MreB; Provisional; Region: PRK13930 398527004424 Cell division protein FtsA; Region: FtsA; cl11496 398527004425 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527004426 Predicted esterase [General function prediction only]; Region: COG0400 398527004427 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527004428 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004429 putative substrate translocation pore; other site 398527004430 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004431 Cupin domain; Region: Cupin_2; cl09118 398527004432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527004433 Glutaminase; Region: Glutaminase; cl00907 398527004434 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 398527004435 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 398527004436 putative NAD(P) binding site [chemical binding]; other site 398527004437 dimer interface [polypeptide binding]; other site 398527004438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004439 active site 398527004440 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527004441 trimer interface [polypeptide binding]; other site 398527004442 eyelet of channel; other site 398527004443 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 398527004444 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398527004445 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527004446 ligand binding site [chemical binding]; other site 398527004447 Helix-turn-helix domains; Region: HTH; cl00088 398527004448 DDE superfamily endonuclease; Region: DDE_4; cl15789 398527004449 LemA family; Region: LemA; cl00742 398527004450 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 398527004451 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 398527004452 BON domain; Region: BON; cl02771 398527004453 BON domain; Region: BON; cl02771 398527004454 Phasin protein; Region: Phasin_2; cl11491 398527004455 FOG: CBS domain [General function prediction only]; Region: COG0517 398527004456 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 398527004457 Rhomboid family; Region: Rhomboid; cl11446 398527004458 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527004459 PAS domain; Region: PAS_9; pfam13426 398527004460 putative active site [active] 398527004461 heme pocket [chemical binding]; other site 398527004462 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 398527004463 Histidine kinase; Region: HisKA_3; pfam07730 398527004464 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527004465 ATP binding site [chemical binding]; other site 398527004466 Mg2+ binding site [ion binding]; other site 398527004467 G-X-G motif; other site 398527004468 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 398527004469 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527004470 Ligand Binding Site [chemical binding]; other site 398527004471 ATP synthase; Region: ATP-synt; cl00365 398527004472 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 398527004473 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 398527004474 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 398527004475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527004476 Walker A motif; other site 398527004477 ATP binding site [chemical binding]; other site 398527004478 Walker B motif; other site 398527004479 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398527004480 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 398527004481 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 398527004482 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 398527004483 ATP synthase subunit C; Region: ATP-synt_C; cl00466 398527004484 ATP synthase A chain; Region: ATP-synt_A; cl00413 398527004485 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 398527004486 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 398527004487 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 398527004488 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 398527004489 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 398527004490 alpha subunit interaction interface [polypeptide binding]; other site 398527004491 Walker A motif; other site 398527004492 ATP binding site [chemical binding]; other site 398527004493 Walker B motif; other site 398527004494 inhibitor binding site; inhibition site 398527004495 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398527004496 BON domain; Region: BON; cl02771 398527004497 BON domain; Region: BON; cl02771 398527004498 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 398527004499 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398527004500 catalytic Zn binding site [ion binding]; other site 398527004501 structural Zn binding site [ion binding]; other site 398527004502 NAD(P) binding site [chemical binding]; other site 398527004503 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 398527004504 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398527004505 NAD(P) binding site [chemical binding]; other site 398527004506 homotetramer interface [polypeptide binding]; other site 398527004507 homodimer interface [polypeptide binding]; other site 398527004508 active site 398527004509 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527004510 Ligand Binding Site [chemical binding]; other site 398527004511 Ion channel; Region: Ion_trans_2; cl11596 398527004512 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527004513 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 398527004514 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 398527004515 Amidinotransferase; Region: Amidinotransf; cl12043 398527004516 ornithine carbamoyltransferase; Validated; Region: PRK02102 398527004517 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398527004518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004519 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 398527004520 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 398527004521 putative substrate binding site [chemical binding]; other site 398527004522 nucleotide binding site [chemical binding]; other site 398527004523 nucleotide binding site [chemical binding]; other site 398527004524 homodimer interface [polypeptide binding]; other site 398527004525 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 398527004526 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 398527004527 dimer interaction site [polypeptide binding]; other site 398527004528 substrate-binding tunnel; other site 398527004529 active site 398527004530 catalytic site [active] 398527004531 substrate binding site [chemical binding]; other site 398527004532 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 398527004533 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 398527004534 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527004535 Ligand Binding Site [chemical binding]; other site 398527004536 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527004537 Ligand Binding Site [chemical binding]; other site 398527004538 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 398527004539 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527004540 Ligand Binding Site [chemical binding]; other site 398527004541 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527004542 Ligand Binding Site [chemical binding]; other site 398527004543 sensory histidine kinase UhpB; Provisional; Region: PRK11644 398527004544 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527004545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527004546 active site 398527004547 phosphorylation site [posttranslational modification] 398527004548 intermolecular recognition site; other site 398527004549 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527004550 DNA binding residues [nucleotide binding] 398527004551 dimerization interface [polypeptide binding]; other site 398527004552 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 398527004553 hypothetical protein; Provisional; Region: PRK07877 398527004554 FMN binding site [chemical binding]; other site 398527004555 dimer interface [polypeptide binding]; other site 398527004556 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398527004557 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 398527004558 NADPH bind site [chemical binding]; other site 398527004559 putative FMN binding site [chemical binding]; other site 398527004560 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527004561 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527004562 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 398527004563 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 398527004564 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398527004565 Walker A/P-loop; other site 398527004566 ATP binding site [chemical binding]; other site 398527004567 Q-loop/lid; other site 398527004568 ABC transporter signature motif; other site 398527004569 Walker B; other site 398527004570 D-loop; other site 398527004571 H-loop/switch region; other site 398527004572 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 398527004573 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398527004574 FtsX-like permease family; Region: FtsX; cl15850 398527004575 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 398527004576 acetyl-CoA synthetase; Provisional; Region: PRK00174 398527004577 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 398527004578 AMP-binding enzyme; Region: AMP-binding; cl15778 398527004579 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527004580 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 398527004581 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 398527004582 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 398527004583 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 398527004584 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 398527004585 putative FMN binding site [chemical binding]; other site 398527004586 NADPH bind site [chemical binding]; other site 398527004587 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 398527004588 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 398527004589 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527004590 Beta-Casp domain; Region: Beta-Casp; cl12567 398527004591 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 398527004592 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 398527004593 FMN binding site [chemical binding]; other site 398527004594 dimer interface [polypeptide binding]; other site 398527004595 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 398527004596 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398527004597 Sulfate transporter family; Region: Sulfate_transp; cl15842 398527004598 Sulfate transporter family; Region: Sulfate_transp; cl15842 398527004599 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 398527004600 Predicted transporter component [General function prediction only]; Region: COG2391 398527004601 Sulphur transport; Region: Sulf_transp; cl01018 398527004602 Sulphur transport; Region: Sulf_transp; cl01018 398527004603 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527004604 Ligand Binding Site [chemical binding]; other site 398527004605 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527004606 Ligand Binding Site [chemical binding]; other site 398527004607 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 398527004608 putative active site [active] 398527004609 putative metal binding site [ion binding]; other site 398527004610 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 398527004611 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527004612 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 398527004613 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 398527004614 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527004615 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 398527004616 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398527004617 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 398527004618 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527004619 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 398527004620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 398527004621 CreA protein; Region: CreA; pfam05981 398527004622 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 398527004623 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527004624 dimerization interface [polypeptide binding]; other site 398527004625 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527004626 PAS domain; Region: PAS_9; pfam13426 398527004627 putative active site [active] 398527004628 heme pocket [chemical binding]; other site 398527004629 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527004630 metal binding site [ion binding]; metal-binding site 398527004631 active site 398527004632 I-site; other site 398527004633 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527004634 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398527004635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004636 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 398527004637 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004638 putative substrate translocation pore; other site 398527004639 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 398527004640 intersubunit interface [polypeptide binding]; other site 398527004641 active site 398527004642 Zn2+ binding site [ion binding]; other site 398527004643 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527004644 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004645 putative substrate translocation pore; other site 398527004646 tricarballylate utilization protein B; Provisional; Region: PRK15033 398527004647 tricarballylate dehydrogenase; Validated; Region: PRK08274 398527004648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527004650 Helix-turn-helix domains; Region: HTH; cl00088 398527004651 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 398527004652 putative dimerization interface [polypeptide binding]; other site 398527004653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527004654 Helix-turn-helix domains; Region: HTH; cl00088 398527004655 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527004656 dimerization interface [polypeptide binding]; other site 398527004657 Helix-turn-helix domains; Region: HTH; cl00088 398527004658 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 398527004659 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 398527004660 FAD binding pocket [chemical binding]; other site 398527004661 FAD binding motif [chemical binding]; other site 398527004662 phosphate binding motif [ion binding]; other site 398527004663 NAD binding pocket [chemical binding]; other site 398527004664 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 398527004665 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 398527004666 DAK2 domain; Region: Dak2; cl03685 398527004667 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 398527004668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527004669 Walker A/P-loop; other site 398527004670 ATP binding site [chemical binding]; other site 398527004671 Q-loop/lid; other site 398527004672 ABC transporter signature motif; other site 398527004673 Walker B; other site 398527004674 D-loop; other site 398527004675 H-loop/switch region; other site 398527004676 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 398527004677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527004678 Walker A/P-loop; other site 398527004679 ATP binding site [chemical binding]; other site 398527004680 Q-loop/lid; other site 398527004681 ABC transporter signature motif; other site 398527004682 Walker B; other site 398527004683 D-loop; other site 398527004684 H-loop/switch region; other site 398527004685 TOBE domain; Region: TOBE_2; cl01440 398527004686 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398527004687 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527004688 dimer interface [polypeptide binding]; other site 398527004689 conserved gate region; other site 398527004690 putative PBP binding loops; other site 398527004691 ABC-ATPase subunit interface; other site 398527004692 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 398527004693 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527004694 dimer interface [polypeptide binding]; other site 398527004695 conserved gate region; other site 398527004696 putative PBP binding loops; other site 398527004697 ABC-ATPase subunit interface; other site 398527004698 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398527004699 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527004700 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398527004701 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527004702 DNA binding site [nucleotide binding] 398527004703 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 398527004704 putative ligand binding site [chemical binding]; other site 398527004705 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527004706 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 398527004707 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398527004708 CsbD-like; Region: CsbD; cl15799 398527004709 CsbD-like; Region: CsbD; cl15799 398527004710 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 398527004711 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527004712 substrate binding site [chemical binding]; other site 398527004713 oxyanion hole (OAH) forming residues; other site 398527004714 trimer interface [polypeptide binding]; other site 398527004715 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 398527004716 enoyl-CoA hydratase; Provisional; Region: PRK09076 398527004717 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527004718 substrate binding site [chemical binding]; other site 398527004719 oxyanion hole (OAH) forming residues; other site 398527004720 trimer interface [polypeptide binding]; other site 398527004721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004722 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 398527004723 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398527004724 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527004725 tetrameric interface [polypeptide binding]; other site 398527004726 NAD binding site [chemical binding]; other site 398527004727 catalytic residues [active] 398527004728 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398527004729 AMP-binding enzyme; Region: AMP-binding; cl15778 398527004730 AMP-binding enzyme; Region: AMP-binding; cl15778 398527004731 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527004732 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527004733 active site 398527004734 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398527004735 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527004736 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527004737 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 398527004738 dimer interface [polypeptide binding]; other site 398527004739 active site residues [active] 398527004740 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 398527004741 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 398527004742 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398527004743 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 398527004744 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527004745 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 398527004746 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398527004747 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398527004748 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398527004749 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 398527004750 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527004751 Walker A motif; other site 398527004752 ATP binding site [chemical binding]; other site 398527004753 Walker B motif; other site 398527004754 arginine finger; other site 398527004755 Helix-turn-helix domains; Region: HTH; cl00088 398527004756 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527004757 catalytic loop [active] 398527004758 iron binding site [ion binding]; other site 398527004759 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 398527004760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 398527004761 YheO-like PAS domain; Region: PAS_6; pfam08348 398527004762 Helix-turn-helix domains; Region: HTH; cl00088 398527004763 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 398527004764 rRNA binding site [nucleotide binding]; other site 398527004765 predicted 30S ribosome binding site; other site 398527004766 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527004767 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527004768 DNA-binding site [nucleotide binding]; DNA binding site 398527004769 FCD domain; Region: FCD; cl11656 398527004770 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398527004771 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 398527004772 putative NAD(P) binding site [chemical binding]; other site 398527004773 putative substrate binding site [chemical binding]; other site 398527004774 catalytic Zn binding site [ion binding]; other site 398527004775 structural Zn binding site [ion binding]; other site 398527004776 translation initiation factor Sui1; Validated; Region: PRK06824 398527004777 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 398527004778 putative rRNA binding site [nucleotide binding]; other site 398527004779 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527004780 metal binding site [ion binding]; metal-binding site 398527004781 active site 398527004782 I-site; other site 398527004783 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398527004784 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527004785 tetrameric interface [polypeptide binding]; other site 398527004786 NAD binding site [chemical binding]; other site 398527004787 catalytic residues [active] 398527004788 putative cyanate transporter; Provisional; Region: cynX; PRK09705 398527004789 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 398527004790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527004791 active site 398527004792 phosphorylation site [posttranslational modification] 398527004793 intermolecular recognition site; other site 398527004794 dimerization interface [polypeptide binding]; other site 398527004795 ANTAR domain; Region: ANTAR; cl04297 398527004796 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398527004797 NMT1-like family; Region: NMT1_2; cl15260 398527004798 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527004799 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398527004800 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 398527004801 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527004802 dimer interface [polypeptide binding]; other site 398527004803 conserved gate region; other site 398527004804 ABC-ATPase subunit interface; other site 398527004805 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527004806 dimer interface [polypeptide binding]; other site 398527004807 conserved gate region; other site 398527004808 putative PBP binding loops; other site 398527004809 ABC-ATPase subunit interface; other site 398527004810 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527004811 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527004812 Walker A/P-loop; other site 398527004813 ATP binding site [chemical binding]; other site 398527004814 Q-loop/lid; other site 398527004815 ABC transporter signature motif; other site 398527004816 Walker B; other site 398527004817 D-loop; other site 398527004818 H-loop/switch region; other site 398527004819 TOBE domain; Region: TOBE_2; cl01440 398527004820 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527004821 trimer interface [polypeptide binding]; other site 398527004822 eyelet of channel; other site 398527004823 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 398527004824 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 398527004825 ligand binding site [chemical binding]; other site 398527004826 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527004827 TM-ABC transporter signature motif; other site 398527004828 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527004829 TM-ABC transporter signature motif; other site 398527004830 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527004831 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527004832 Walker A/P-loop; other site 398527004833 ATP binding site [chemical binding]; other site 398527004834 Q-loop/lid; other site 398527004835 ABC transporter signature motif; other site 398527004836 Walker B; other site 398527004837 D-loop; other site 398527004838 H-loop/switch region; other site 398527004839 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527004840 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398527004841 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527004842 Domain of unknown function (DUF718); Region: DUF718; cl01281 398527004843 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398527004844 Helix-turn-helix domains; Region: HTH; cl00088 398527004845 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 398527004846 putative dimerization interface [polypeptide binding]; other site 398527004847 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527004848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004849 NAD(P) binding site [chemical binding]; other site 398527004850 active site 398527004851 L-rhamnonate dehydratase; Provisional; Region: PRK15440 398527004852 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 398527004853 putative active site pocket [active] 398527004854 putative metal binding site [ion binding]; other site 398527004855 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004856 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527004857 putative substrate translocation pore; other site 398527004858 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527004859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004860 NAD(P) binding site [chemical binding]; other site 398527004861 active site 398527004862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004863 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398527004864 NAD(P) binding site [chemical binding]; other site 398527004865 active site 398527004866 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398527004867 Proline racemase; Region: Pro_racemase; pfam05544 398527004868 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527004869 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 398527004870 dimerization interface [polypeptide binding]; other site 398527004871 ligand binding site [chemical binding]; other site 398527004872 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398527004873 putative acyl-acceptor binding pocket; other site 398527004874 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 398527004875 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398527004876 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004877 putative substrate translocation pore; other site 398527004878 H-NS histone family; Region: Histone_HNS; pfam00816 398527004879 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527004880 Low molecular weight phosphatase family; Region: LMWPc; cl00105 398527004881 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398527004882 active site 398527004883 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 398527004884 putative active site pocket [active] 398527004885 dimerization interface [polypeptide binding]; other site 398527004886 putative catalytic residue [active] 398527004887 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 398527004888 HSP70 interaction site [polypeptide binding]; other site 398527004889 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527004890 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 398527004891 dinuclear metal binding motif [ion binding]; other site 398527004892 indole acetimide hydrolase; Validated; Region: PRK07488 398527004893 Amidase; Region: Amidase; cl11426 398527004894 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 398527004895 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 398527004896 Fatty acid desaturase; Region: FA_desaturase; pfam00487 398527004897 putative di-iron ligands [ion binding]; other site 398527004898 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527004899 Helix-turn-helix domains; Region: HTH; cl00088 398527004900 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 398527004901 putative effector binding pocket; other site 398527004902 putative dimerization interface [polypeptide binding]; other site 398527004903 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527004904 Cupin domain; Region: Cupin_2; cl09118 398527004905 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 398527004906 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 398527004907 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 398527004908 Found in ATP-dependent protease La (LON); Region: LON; smart00464 398527004909 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527004910 Walker A motif; other site 398527004911 ATP binding site [chemical binding]; other site 398527004912 Walker B motif; other site 398527004913 arginine finger; other site 398527004914 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 398527004915 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 398527004916 putative dimer interface [polypeptide binding]; other site 398527004917 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398527004918 TOBE domain; Region: TOBE_2; cl01440 398527004919 TOBE domain; Region: TOBE_2; cl01440 398527004920 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 398527004921 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398527004922 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398527004923 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 398527004924 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 398527004925 dinuclear metal binding motif [ion binding]; other site 398527004926 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527004927 active site 398527004928 phosphorylation site [posttranslational modification] 398527004929 intermolecular recognition site; other site 398527004930 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527004931 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 398527004932 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 398527004933 putative dimer interface [polypeptide binding]; other site 398527004934 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 398527004935 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 398527004936 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527004937 dimerization interface [polypeptide binding]; other site 398527004938 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527004939 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527004940 dimer interface [polypeptide binding]; other site 398527004941 putative CheW interface [polypeptide binding]; other site 398527004942 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 398527004943 dimer interface [polypeptide binding]; other site 398527004944 NADP binding site [chemical binding]; other site 398527004945 catalytic residues [active] 398527004946 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 398527004947 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004948 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527004949 putative substrate translocation pore; other site 398527004950 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 398527004951 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527004952 trimer interface [polypeptide binding]; other site 398527004953 eyelet of channel; other site 398527004954 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398527004955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527004956 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527004957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527004958 DNA-binding site [nucleotide binding]; DNA binding site 398527004959 FCD domain; Region: FCD; cl11656 398527004960 shikimate transporter; Provisional; Region: PRK09952 398527004961 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527004962 putative substrate translocation pore; other site 398527004963 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398527004964 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398527004965 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 398527004966 active site 398527004967 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398527004968 Helix-turn-helix domains; Region: HTH; cl00088 398527004969 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 398527004970 putative dimerization interface [polypeptide binding]; other site 398527004971 KduI/IolB family; Region: KduI; cl01508 398527004972 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 398527004973 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 398527004974 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 398527004975 mannonate dehydratase; Provisional; Region: PRK03906 398527004976 mannonate dehydratase; Region: uxuA; TIGR00695 398527004977 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527004978 PAS fold; Region: PAS_4; pfam08448 398527004979 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527004980 metal binding site [ion binding]; metal-binding site 398527004981 active site 398527004982 I-site; other site 398527004983 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527004984 amidase; Provisional; Region: PRK08137 398527004985 Amidase; Region: Amidase; cl11426 398527004986 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527004987 classical (c) SDRs; Region: SDR_c; cd05233 398527004988 NAD(P) binding site [chemical binding]; other site 398527004989 active site 398527004990 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 398527004991 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 398527004992 active site 398527004993 phosphorylation site [posttranslational modification] 398527004994 dimerization interface [polypeptide binding]; other site 398527004995 ANTAR domain; Region: ANTAR; cl04297 398527004996 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527004997 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 398527004998 ligand binding site [chemical binding]; other site 398527004999 regulator interaction site; other site 398527005000 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 398527005001 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 398527005002 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527005003 Walker A/P-loop; other site 398527005004 ATP binding site [chemical binding]; other site 398527005005 Q-loop/lid; other site 398527005006 ABC transporter signature motif; other site 398527005007 Walker B; other site 398527005008 D-loop; other site 398527005009 H-loop/switch region; other site 398527005010 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 398527005011 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527005012 Walker A/P-loop; other site 398527005013 ATP binding site [chemical binding]; other site 398527005014 Q-loop/lid; other site 398527005015 ABC transporter signature motif; other site 398527005016 Walker B; other site 398527005017 D-loop; other site 398527005018 H-loop/switch region; other site 398527005019 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527005020 TM-ABC transporter signature motif; other site 398527005021 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527005022 TM-ABC transporter signature motif; other site 398527005023 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527005024 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_Amide_Urea_BP_like; cd06356 398527005025 putative ligand binding site [chemical binding]; other site 398527005026 Helix-turn-helix domains; Region: HTH; cl00088 398527005027 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 398527005028 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398527005029 putative NAD(P) binding site [chemical binding]; other site 398527005030 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 398527005031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005032 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527005033 putative DNA binding site [nucleotide binding]; other site 398527005034 putative Zn2+ binding site [ion binding]; other site 398527005035 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 398527005036 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527005037 putative metal binding site [ion binding]; other site 398527005038 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398527005039 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398527005040 active site 398527005041 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527005042 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398527005043 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527005044 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 398527005045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005046 CoA-ligase; Region: Ligase_CoA; cl02894 398527005047 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527005048 enoyl-CoA hydratase; Provisional; Region: PRK06688 398527005049 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527005050 substrate binding site [chemical binding]; other site 398527005051 oxyanion hole (OAH) forming residues; other site 398527005052 trimer interface [polypeptide binding]; other site 398527005053 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005054 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527005055 putative substrate translocation pore; other site 398527005056 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527005057 Helix-turn-helix domains; Region: HTH; cl00088 398527005058 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 398527005059 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 398527005060 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527005061 dimer interface [polypeptide binding]; other site 398527005062 phosphorylation site [posttranslational modification] 398527005063 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527005064 ATP binding site [chemical binding]; other site 398527005065 Mg2+ binding site [ion binding]; other site 398527005066 G-X-G motif; other site 398527005067 Response regulator receiver domain; Region: Response_reg; pfam00072 398527005068 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527005069 active site 398527005070 phosphorylation site [posttranslational modification] 398527005071 intermolecular recognition site; other site 398527005072 dimerization interface [polypeptide binding]; other site 398527005073 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 398527005074 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 398527005075 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 398527005076 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527005077 ATP binding site [chemical binding]; other site 398527005078 Mg2+ binding site [ion binding]; other site 398527005079 G-X-G motif; other site 398527005080 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 398527005081 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 398527005082 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 398527005083 Helix-turn-helix domains; Region: HTH; cl00088 398527005084 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527005085 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527005086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005087 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527005088 putative substrate translocation pore; other site 398527005089 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527005090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527005091 DNA-binding site [nucleotide binding]; DNA binding site 398527005092 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527005093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527005094 homodimer interface [polypeptide binding]; other site 398527005095 catalytic residue [active] 398527005096 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527005097 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527005098 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527005099 DNA-binding site [nucleotide binding]; DNA binding site 398527005100 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527005101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527005102 homodimer interface [polypeptide binding]; other site 398527005103 catalytic residue [active] 398527005104 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527005105 Helix-turn-helix domains; Region: HTH; cl00088 398527005106 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527005107 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005108 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527005109 putative substrate translocation pore; other site 398527005110 Cupin domain; Region: Cupin_2; cl09118 398527005111 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 398527005112 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398527005113 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398527005114 shikimate binding site; other site 398527005115 NAD(P) binding site [chemical binding]; other site 398527005116 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398527005117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005118 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 398527005119 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 398527005120 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 398527005121 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 398527005122 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 398527005123 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527005124 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527005125 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398527005126 Helix-turn-helix domains; Region: HTH; cl00088 398527005127 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005128 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527005129 putative substrate translocation pore; other site 398527005130 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005131 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527005132 trimer interface [polypeptide binding]; other site 398527005133 eyelet of channel; other site 398527005134 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 398527005135 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527005136 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 398527005137 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527005138 NAD(P) binding site [chemical binding]; other site 398527005139 catalytic residues [active] 398527005140 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527005141 putative DNA binding site [nucleotide binding]; other site 398527005142 dimerization interface [polypeptide binding]; other site 398527005143 putative Zn2+ binding site [ion binding]; other site 398527005144 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 398527005145 FMN binding site [chemical binding]; other site 398527005146 active site 398527005147 substrate binding site [chemical binding]; other site 398527005148 catalytic residue [active] 398527005149 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527005150 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398527005151 Ligand-binding SRPBCC domain of Micromonospora echinospora CalC and related proteins; Region: SRPBCC_CalC; cd08891 398527005152 putative hydrophobic ligand binding site [chemical binding]; other site 398527005153 CLM binding site; other site 398527005154 L1 loop; other site 398527005155 DNA binding site [nucleotide binding] 398527005156 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527005157 dimerization interface [polypeptide binding]; other site 398527005158 putative DNA binding site [nucleotide binding]; other site 398527005159 putative Zn2+ binding site [ion binding]; other site 398527005160 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 398527005161 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527005162 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527005163 Helix-turn-helix domains; Region: HTH; cl00088 398527005164 Isochorismatase family; Region: Isochorismatase; pfam00857 398527005165 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 398527005166 catalytic triad [active] 398527005167 conserved cis-peptide bond; other site 398527005168 H+ Antiporter protein; Region: 2A0121; TIGR00900 398527005169 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005170 putative substrate translocation pore; other site 398527005171 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398527005172 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527005173 tetrameric interface [polypeptide binding]; other site 398527005174 NAD binding site [chemical binding]; other site 398527005175 catalytic residues [active] 398527005176 transcriptional activator TtdR; Provisional; Region: PRK09801 398527005177 Helix-turn-helix domains; Region: HTH; cl00088 398527005178 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 398527005179 putative effector binding pocket; other site 398527005180 putative dimerization interface [polypeptide binding]; other site 398527005181 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005182 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527005183 putative substrate translocation pore; other site 398527005184 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398527005185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005186 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 398527005187 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 398527005188 trimer interface [polypeptide binding]; other site 398527005189 active site 398527005190 dimer interface [polypeptide binding]; other site 398527005191 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527005192 Helix-turn-helix domains; Region: HTH; cl00088 398527005193 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 398527005194 putative effector binding pocket; other site 398527005195 putative dimerization interface [polypeptide binding]; other site 398527005196 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398527005197 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527005198 motif II; other site 398527005199 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 398527005200 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 398527005201 active site 398527005202 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398527005203 dimer interface [polypeptide binding]; other site 398527005204 substrate binding site [chemical binding]; other site 398527005205 catalytic residue [active] 398527005206 Helix-turn-helix domains; Region: HTH; cl00088 398527005207 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527005208 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527005209 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527005210 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527005211 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 398527005212 NAD binding site [chemical binding]; other site 398527005213 catalytic residues [active] 398527005214 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 398527005215 putative active site [active] 398527005216 putative metal binding site [ion binding]; other site 398527005217 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 398527005218 putative substrate binding pocket [chemical binding]; other site 398527005219 trimer interface [polypeptide binding]; other site 398527005220 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527005221 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 398527005222 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 398527005223 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527005224 metal binding site [ion binding]; metal-binding site 398527005225 active site 398527005226 I-site; other site 398527005227 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527005228 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527005229 metal binding site [ion binding]; metal-binding site 398527005230 active site 398527005231 I-site; other site 398527005232 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 398527005233 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 398527005234 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527005235 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 398527005236 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 398527005237 DXD motif; other site 398527005238 PilZ domain; Region: PilZ; cl01260 398527005239 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 398527005240 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 398527005241 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 398527005242 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527005243 binding surface 398527005244 TPR motif; other site 398527005245 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527005246 binding surface 398527005247 TPR motif; other site 398527005248 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527005249 TPR motif; other site 398527005250 binding surface 398527005251 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527005252 TPR motif; other site 398527005253 binding surface 398527005254 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 398527005255 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 398527005256 putative diguanylate cyclase; Provisional; Region: PRK09776 398527005257 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527005258 putative active site [active] 398527005259 heme pocket [chemical binding]; other site 398527005260 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527005261 dimer interface [polypeptide binding]; other site 398527005262 phosphorylation site [posttranslational modification] 398527005263 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 398527005264 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527005265 ATP binding site [chemical binding]; other site 398527005266 G-X-G motif; other site 398527005267 Response regulator receiver domain; Region: Response_reg; pfam00072 398527005268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527005269 active site 398527005270 phosphorylation site [posttranslational modification] 398527005271 intermolecular recognition site; other site 398527005272 dimerization interface [polypeptide binding]; other site 398527005273 Response regulator receiver domain; Region: Response_reg; pfam00072 398527005274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527005275 active site 398527005276 phosphorylation site [posttranslational modification] 398527005277 intermolecular recognition site; other site 398527005278 dimerization interface [polypeptide binding]; other site 398527005279 Protein of unknown function DUF72; Region: DUF72; cl00777 398527005280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527005281 Helix-turn-helix domains; Region: HTH; cl00088 398527005282 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527005283 dimerization interface [polypeptide binding]; other site 398527005284 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527005285 dimerization interface [polypeptide binding]; other site 398527005286 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398527005287 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527005288 ATP binding site [chemical binding]; other site 398527005289 Mg2+ binding site [ion binding]; other site 398527005290 G-X-G motif; other site 398527005291 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398527005292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527005293 active site 398527005294 phosphorylation site [posttranslational modification] 398527005295 intermolecular recognition site; other site 398527005296 dimerization interface [polypeptide binding]; other site 398527005297 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527005298 DNA binding site [nucleotide binding] 398527005299 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398527005300 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398527005301 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527005302 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527005303 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527005304 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 398527005305 transmembrane helices; other site 398527005306 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527005307 PAS fold; Region: PAS_3; pfam08447 398527005308 putative active site [active] 398527005309 heme pocket [chemical binding]; other site 398527005310 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527005311 metal binding site [ion binding]; metal-binding site 398527005312 active site 398527005313 I-site; other site 398527005314 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398527005315 YceI-like domain; Region: YceI; cl01001 398527005316 YceI-like domain; Region: YceI; cl01001 398527005317 Membrane transport protein; Region: Mem_trans; cl09117 398527005318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527005319 Helix-turn-helix domains; Region: HTH; cl00088 398527005320 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527005321 dimerization interface [polypeptide binding]; other site 398527005322 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 398527005323 classical (c) SDRs; Region: SDR_c; cd05233 398527005324 NAD(P) binding site [chemical binding]; other site 398527005325 active site 398527005326 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 398527005327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005328 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527005329 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527005330 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527005331 catalytic residue [active] 398527005332 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 398527005333 active site 398527005334 DNA polymerase IV; Validated; Region: PRK02406 398527005335 DNA binding site [nucleotide binding] 398527005336 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398527005337 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527005338 dimer interface [polypeptide binding]; other site 398527005339 phosphorylation site [posttranslational modification] 398527005340 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527005341 ATP binding site [chemical binding]; other site 398527005342 Mg2+ binding site [ion binding]; other site 398527005343 G-X-G motif; other site 398527005344 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398527005345 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527005346 active site 398527005347 phosphorylation site [posttranslational modification] 398527005348 intermolecular recognition site; other site 398527005349 dimerization interface [polypeptide binding]; other site 398527005350 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527005351 DNA binding site [nucleotide binding] 398527005352 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527005353 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398527005354 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527005355 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398527005356 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 398527005357 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527005358 putative metal binding site [ion binding]; other site 398527005359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527005360 Helix-turn-helix domains; Region: HTH; cl00088 398527005361 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 398527005362 putative dimerization interface [polypeptide binding]; other site 398527005363 LysE type translocator; Region: LysE; cl00565 398527005364 Sulfate transporter family; Region: Sulfate_transp; cl15842 398527005365 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398527005366 Sulfate transporter family; Region: Sulfate_transp; cl15842 398527005367 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 398527005368 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 398527005369 ATP binding site [chemical binding]; other site 398527005370 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527005371 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527005372 DNA binding site [nucleotide binding] 398527005373 domain linker motif; other site 398527005374 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 398527005375 dimerization interface (closed form) [polypeptide binding]; other site 398527005376 ligand binding site [chemical binding]; other site 398527005377 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398527005378 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 398527005379 Walker A/P-loop; other site 398527005380 ATP binding site [chemical binding]; other site 398527005381 Q-loop/lid; other site 398527005382 ABC transporter signature motif; other site 398527005383 Walker B; other site 398527005384 D-loop; other site 398527005385 H-loop/switch region; other site 398527005386 TOBE domain; Region: TOBE_2; cl01440 398527005387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527005388 dimer interface [polypeptide binding]; other site 398527005389 conserved gate region; other site 398527005390 putative PBP binding loops; other site 398527005391 ABC-ATPase subunit interface; other site 398527005392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527005393 dimer interface [polypeptide binding]; other site 398527005394 conserved gate region; other site 398527005395 putative PBP binding loops; other site 398527005396 ABC-ATPase subunit interface; other site 398527005397 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398527005398 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527005399 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 398527005400 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 398527005401 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 398527005402 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398527005403 conserved cys residue [active] 398527005404 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 398527005405 active site residue [active] 398527005406 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527005407 trimer interface [polypeptide binding]; other site 398527005408 eyelet of channel; other site 398527005409 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 398527005410 Uncharacterized conserved protein [Function unknown]; Region: COG5634 398527005411 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 398527005412 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 398527005413 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 398527005414 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527005415 metal binding site [ion binding]; metal-binding site 398527005416 active site 398527005417 I-site; other site 398527005418 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527005419 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 398527005420 Peptidase family M23; Region: Peptidase_M23; pfam01551 398527005421 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 398527005422 dihydrodipicolinate synthase; Region: dapA; TIGR00674 398527005423 dimer interface [polypeptide binding]; other site 398527005424 active site 398527005425 catalytic residue [active] 398527005426 aspartate carbamoyltransferase; Provisional; Region: PRK11891 398527005427 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398527005428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005429 Putative esterase; Region: Esterase; pfam00756 398527005430 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527005431 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527005432 Helix-turn-helix domains; Region: HTH; cl00088 398527005433 AsnC family; Region: AsnC_trans_reg; pfam01037 398527005434 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398527005435 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527005436 motif II; other site 398527005437 Phosphotransferase enzyme family; Region: APH; pfam01636 398527005438 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527005439 active site 398527005440 ATP binding site [chemical binding]; other site 398527005441 substrate binding site [chemical binding]; other site 398527005442 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 398527005443 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527005444 inhibitor-cofactor binding pocket; inhibition site 398527005445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527005446 catalytic residue [active] 398527005447 Cupin domain; Region: Cupin_2; cl09118 398527005448 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398527005449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005450 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527005451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005452 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 398527005453 homotrimer interaction site [polypeptide binding]; other site 398527005454 putative active site [active] 398527005455 transcriptional regulator; Provisional; Region: PRK10632 398527005456 Helix-turn-helix domains; Region: HTH; cl00088 398527005457 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527005458 dimerization interface [polypeptide binding]; other site 398527005459 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527005460 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398527005461 active site 398527005462 catalytic tetrad [active] 398527005463 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527005464 Helix-turn-helix domains; Region: HTH; cl00088 398527005465 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527005466 dimerization interface [polypeptide binding]; other site 398527005467 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398527005468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527005469 active site 398527005470 phosphorylation site [posttranslational modification] 398527005471 intermolecular recognition site; other site 398527005472 dimerization interface [polypeptide binding]; other site 398527005473 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527005474 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398527005475 dimer interface [polypeptide binding]; other site 398527005476 phosphorylation site [posttranslational modification] 398527005477 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527005478 ATP binding site [chemical binding]; other site 398527005479 Mg2+ binding site [ion binding]; other site 398527005480 G-X-G motif; other site 398527005481 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398527005482 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527005483 Coenzyme A binding pocket [chemical binding]; other site 398527005484 lipoyl synthase; Provisional; Region: PRK12928 398527005485 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527005486 FeS/SAM binding site; other site 398527005487 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 398527005488 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398527005489 E3 interaction surface; other site 398527005490 lipoyl attachment site [posttranslational modification]; other site 398527005491 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 398527005492 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 398527005493 alpha subunit interface [polypeptide binding]; other site 398527005494 TPP binding site [chemical binding]; other site 398527005495 heterodimer interface [polypeptide binding]; other site 398527005496 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398527005497 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 398527005498 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 398527005499 tetramer interface [polypeptide binding]; other site 398527005500 TPP-binding site [chemical binding]; other site 398527005501 heterodimer interface [polypeptide binding]; other site 398527005502 phosphorylation loop region [posttranslational modification] 398527005503 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 398527005504 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 398527005505 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527005506 Walker A motif; other site 398527005507 ATP binding site [chemical binding]; other site 398527005508 Walker B motif; other site 398527005509 arginine finger; other site 398527005510 Helix-turn-helix domains; Region: HTH; cl00088 398527005511 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 398527005512 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 398527005513 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398527005514 dimer interface [polypeptide binding]; other site 398527005515 active site 398527005516 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398527005517 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 398527005518 putative NAD(P) binding site [chemical binding]; other site 398527005519 active site 398527005520 putative substrate binding site [chemical binding]; other site 398527005521 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 398527005522 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398527005523 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005524 putative substrate translocation pore; other site 398527005525 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 398527005526 intersubunit interface [polypeptide binding]; other site 398527005527 active site 398527005528 Zn2+ binding site [ion binding]; other site 398527005529 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 398527005530 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398527005531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005532 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527005533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527005534 DNA-binding site [nucleotide binding]; DNA binding site 398527005535 FCD domain; Region: FCD; cl11656 398527005536 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 398527005537 Helix-turn-helix domains; Region: HTH; cl00088 398527005538 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527005539 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005540 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527005541 putative substrate translocation pore; other site 398527005542 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398527005543 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398527005544 metal binding site [ion binding]; metal-binding site 398527005545 putative dimer interface [polypeptide binding]; other site 398527005546 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 398527005547 Helix-turn-helix domains; Region: HTH; cl00088 398527005548 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527005549 dimerization interface [polypeptide binding]; other site 398527005550 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 398527005551 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527005552 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 398527005553 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527005554 DNA-binding site [nucleotide binding]; DNA binding site 398527005555 UTRA domain; Region: UTRA; cl01230 398527005556 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 398527005557 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 398527005558 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 398527005559 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 398527005560 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 398527005561 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527005562 Walker A/P-loop; other site 398527005563 ATP binding site [chemical binding]; other site 398527005564 Q-loop/lid; other site 398527005565 ABC transporter signature motif; other site 398527005566 Walker B; other site 398527005567 D-loop; other site 398527005568 H-loop/switch region; other site 398527005569 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527005570 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 398527005571 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527005572 Walker A/P-loop; other site 398527005573 ATP binding site [chemical binding]; other site 398527005574 Q-loop/lid; other site 398527005575 ABC transporter signature motif; other site 398527005576 Walker B; other site 398527005577 D-loop; other site 398527005578 H-loop/switch region; other site 398527005579 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 398527005580 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527005581 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 398527005582 active site 398527005583 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527005584 metal binding site [ion binding]; metal-binding site 398527005585 active site 398527005586 I-site; other site 398527005587 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 398527005588 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527005589 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 398527005590 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527005591 substrate binding pocket [chemical binding]; other site 398527005592 membrane-bound complex binding site; other site 398527005593 hinge residues; other site 398527005594 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 398527005595 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 398527005596 active site 398527005597 Zn binding site [ion binding]; other site 398527005598 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527005599 trimer interface [polypeptide binding]; other site 398527005600 eyelet of channel; other site 398527005601 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 398527005602 active site 398527005603 intersubunit interface [polypeptide binding]; other site 398527005604 Zn2+ binding site [ion binding]; other site 398527005605 OsmC-like protein; Region: OsmC; cl00767 398527005606 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527005607 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527005608 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 398527005609 multidrug efflux protein; Reviewed; Region: PRK09579 398527005610 Phosphoesterase family; Region: Phosphoesterase; cl15450 398527005611 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 398527005612 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527005613 substrate binding pocket [chemical binding]; other site 398527005614 membrane-bound complex binding site; other site 398527005615 hinge residues; other site 398527005616 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 398527005617 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 398527005618 homodimer interface [polypeptide binding]; other site 398527005619 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 398527005620 active site pocket [active] 398527005621 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005622 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005623 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 398527005624 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 398527005625 tetramer interface [polypeptide binding]; other site 398527005626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527005627 catalytic residue [active] 398527005628 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 398527005629 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 398527005630 Cupin domain; Region: Cupin_2; cl09118 398527005631 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527005632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005633 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 398527005634 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 398527005635 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527005636 NAD-dependent deacetylase; Provisional; Region: PRK05333 398527005637 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 398527005638 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 398527005639 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398527005640 classical (c) SDRs; Region: SDR_c; cd05233 398527005641 NAD(P) binding site [chemical binding]; other site 398527005642 active site 398527005643 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 398527005644 NodB motif; other site 398527005645 active site 398527005646 catalytic site [active] 398527005647 metal binding site [ion binding]; metal-binding site 398527005648 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 398527005649 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 398527005650 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398527005651 flagellar motor protein MotB; Validated; Region: motB; PRK09041 398527005652 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 398527005653 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527005654 ligand binding site [chemical binding]; other site 398527005655 CsbD-like; Region: CsbD; cl15799 398527005656 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 398527005657 putative catalytic site [active] 398527005658 putative phosphate binding site [ion binding]; other site 398527005659 active site 398527005660 metal binding site A [ion binding]; metal-binding site 398527005661 DNA binding site [nucleotide binding] 398527005662 putative AP binding site [nucleotide binding]; other site 398527005663 putative metal binding site B [ion binding]; other site 398527005664 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 398527005665 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398527005666 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527005667 catalytic loop [active] 398527005668 iron binding site [ion binding]; other site 398527005669 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527005670 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 398527005671 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 398527005672 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398527005673 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527005674 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527005675 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 398527005676 Ligand binding site; other site 398527005677 metal-binding site 398527005678 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398527005679 CoenzymeA binding site [chemical binding]; other site 398527005680 subunit interaction site [polypeptide binding]; other site 398527005681 PHB binding site; other site 398527005682 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 398527005683 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 398527005684 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 398527005685 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 398527005686 Fe-S cluster binding site [ion binding]; other site 398527005687 active site 398527005688 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 398527005689 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 398527005690 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 398527005691 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527005692 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527005693 catalytic residue [active] 398527005694 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527005695 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 398527005696 PYR/PP interface [polypeptide binding]; other site 398527005697 dimer interface [polypeptide binding]; other site 398527005698 TPP binding site [chemical binding]; other site 398527005699 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 398527005700 TPP-binding site; other site 398527005701 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 398527005702 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 398527005703 tetramer interface [polypeptide binding]; other site 398527005704 active site 398527005705 Mg2+/Mn2+ binding site [ion binding]; other site 398527005706 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 398527005707 active site 398527005708 metal-binding site 398527005709 Cache domain; Region: Cache_2; cl07034 398527005710 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527005711 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527005712 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527005713 dimer interface [polypeptide binding]; other site 398527005714 putative CheW interface [polypeptide binding]; other site 398527005715 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 398527005716 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398527005717 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527005718 GAF domain; Region: GAF; cl15785 398527005719 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527005720 metal binding site [ion binding]; metal-binding site 398527005721 active site 398527005722 I-site; other site 398527005723 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 398527005724 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 398527005725 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 398527005726 putative catalytic residue [active] 398527005727 LysE type translocator; Region: LysE; cl00565 398527005728 Uncharacterized conserved protein [Function unknown]; Region: COG1739 398527005729 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 398527005730 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 398527005731 LysE type translocator; Region: LysE; cl00565 398527005732 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 398527005733 trimer interface [polypeptide binding]; other site 398527005734 active site 398527005735 substrate binding site [chemical binding]; other site 398527005736 CoA binding site [chemical binding]; other site 398527005737 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 398527005738 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 398527005739 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 398527005740 putative ADP-binding pocket [chemical binding]; other site 398527005741 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 398527005742 MatE; Region: MatE; cl10513 398527005743 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 398527005744 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398527005745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005746 tyrosine kinase; Provisional; Region: PRK11519 398527005747 Chain length determinant protein; Region: Wzz; cl15801 398527005748 Chain length determinant protein; Region: Wzz; cl15801 398527005749 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 398527005750 P loop; other site 398527005751 Nucleotide binding site [chemical binding]; other site 398527005752 DTAP/Switch II; other site 398527005753 Switch I; other site 398527005754 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398527005755 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398527005756 active site 398527005757 polysaccharide export protein Wza; Provisional; Region: PRK15078 398527005758 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398527005759 SLBB domain; Region: SLBB; pfam10531 398527005760 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 398527005761 Bacterial sugar transferase; Region: Bac_transf; cl00939 398527005762 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398527005763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005764 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398527005765 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527005766 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 398527005767 NAD(P) binding site [chemical binding]; other site 398527005768 catalytic residues [active] 398527005769 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527005770 Helix-turn-helix domains; Region: HTH; cl00088 398527005771 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 398527005772 putative dimerization interface [polypeptide binding]; other site 398527005773 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 398527005774 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005775 putative substrate translocation pore; other site 398527005776 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527005777 Helix-turn-helix domains; Region: HTH; cl00088 398527005778 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 398527005779 putative dimerization interface [polypeptide binding]; other site 398527005780 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 398527005781 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527005782 formyl-coenzyme A transferase; Provisional; Region: PRK05398 398527005783 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527005784 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527005785 DNA-binding site [nucleotide binding]; DNA binding site 398527005786 FCD domain; Region: FCD; cl11656 398527005787 shikimate transporter; Provisional; Region: PRK09952 398527005788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005789 putative substrate translocation pore; other site 398527005790 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 398527005791 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005792 Reovirus sigma C capsid protein; Region: Reo_sigmaC; pfam04582 398527005793 YadA-like C-terminal region; Region: YadA; pfam03895 398527005794 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527005795 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398527005796 dimer interface [polypeptide binding]; other site 398527005797 phosphorylation site [posttranslational modification] 398527005798 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527005799 ATP binding site [chemical binding]; other site 398527005800 Mg2+ binding site [ion binding]; other site 398527005801 G-X-G motif; other site 398527005802 Cyclophilin-like; Region: Cyclophil_like; cl00950 398527005803 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527005804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527005805 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527005806 Autoinducer binding domain; Region: Autoind_bind; pfam03472 398527005807 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527005808 DNA binding residues [nucleotide binding] 398527005809 dimerization interface [polypeptide binding]; other site 398527005810 amidase; Provisional; Region: PRK07486 398527005811 Amidase; Region: Amidase; cl11426 398527005812 ABC-2 type transporter; Region: ABC2_membrane; cl11417 398527005813 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398527005814 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 398527005815 Walker A/P-loop; other site 398527005816 ATP binding site [chemical binding]; other site 398527005817 Q-loop/lid; other site 398527005818 ABC transporter signature motif; other site 398527005819 Walker B; other site 398527005820 D-loop; other site 398527005821 H-loop/switch region; other site 398527005822 Tannase and feruloyl esterase; Region: Tannase; pfam07519 398527005823 OpgC protein; Region: OpgC_C; cl00792 398527005824 OpgC protein; Region: OpgC_C; cl00792 398527005825 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398527005826 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 398527005827 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527005828 Walker A motif; other site 398527005829 ATP binding site [chemical binding]; other site 398527005830 Walker B motif; other site 398527005831 arginine finger; other site 398527005832 Peptidase family M41; Region: Peptidase_M41; pfam01434 398527005833 Nitronate monooxygenase; Region: NMO; pfam03060 398527005834 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 398527005835 FMN binding site [chemical binding]; other site 398527005836 substrate binding site [chemical binding]; other site 398527005837 putative catalytic residue [active] 398527005838 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 398527005839 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 398527005840 transmembrane helices; other site 398527005841 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527005842 putative substrate translocation pore; other site 398527005843 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398527005844 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398527005845 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398527005846 active site 398527005847 metal binding site [ion binding]; metal-binding site 398527005848 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 398527005849 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398527005850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527005851 active site 398527005852 phosphorylation site [posttranslational modification] 398527005853 intermolecular recognition site; other site 398527005854 dimerization interface [polypeptide binding]; other site 398527005855 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527005856 Walker A motif; other site 398527005857 ATP binding site [chemical binding]; other site 398527005858 Walker B motif; other site 398527005859 arginine finger; other site 398527005860 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527005861 dimer interface [polypeptide binding]; other site 398527005862 phosphorylation site [posttranslational modification] 398527005863 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527005864 ATP binding site [chemical binding]; other site 398527005865 Mg2+ binding site [ion binding]; other site 398527005866 G-X-G motif; other site 398527005867 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 398527005868 active site 398527005869 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398527005870 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398527005871 shikimate binding site; other site 398527005872 NAD(P) binding site [chemical binding]; other site 398527005873 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398527005874 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527005875 Walker A/P-loop; other site 398527005876 ATP binding site [chemical binding]; other site 398527005877 Q-loop/lid; other site 398527005878 ABC transporter signature motif; other site 398527005879 Walker B; other site 398527005880 D-loop; other site 398527005881 H-loop/switch region; other site 398527005882 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 398527005883 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398527005884 putative NAD(P) binding site [chemical binding]; other site 398527005885 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 398527005886 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 398527005887 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527005888 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398527005889 binding surface 398527005890 TPR motif; other site 398527005891 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527005892 binding surface 398527005893 TPR motif; other site 398527005894 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527005895 binding surface 398527005896 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398527005897 TPR motif; other site 398527005898 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 398527005899 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 398527005900 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 398527005901 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 398527005902 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398527005903 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 398527005904 metal-binding site [ion binding] 398527005905 Domain of unknown function (DUF305); Region: DUF305; cl15795 398527005906 Cupin domain; Region: Cupin_2; cl09118 398527005907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527005908 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527005909 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527005910 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527005911 S-adenosylmethionine binding site [chemical binding]; other site 398527005912 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 398527005913 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 398527005914 PrpF protein; Region: PrpF; pfam04303 398527005915 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 398527005916 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 398527005917 substrate binding site [chemical binding]; other site 398527005918 ligand binding site [chemical binding]; other site 398527005919 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 398527005920 substrate binding site [chemical binding]; other site 398527005921 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 398527005922 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 398527005923 dimer interface [polypeptide binding]; other site 398527005924 active site 398527005925 citrylCoA binding site [chemical binding]; other site 398527005926 oxalacetate/citrate binding site [chemical binding]; other site 398527005927 coenzyme A binding site [chemical binding]; other site 398527005928 catalytic triad [active] 398527005929 Propionate catabolism activator; Region: PrpR_N; pfam06506 398527005930 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 398527005931 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527005932 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527005933 Walker A motif; other site 398527005934 ATP binding site [chemical binding]; other site 398527005935 Walker B motif; other site 398527005936 arginine finger; other site 398527005937 Helix-turn-helix domains; Region: HTH; cl00088 398527005938 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527005939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527005940 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398527005941 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 398527005942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005943 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 398527005944 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527005945 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 398527005946 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527005947 Walker A/P-loop; other site 398527005948 ATP binding site [chemical binding]; other site 398527005949 Q-loop/lid; other site 398527005950 ABC transporter signature motif; other site 398527005951 Walker B; other site 398527005952 D-loop; other site 398527005953 H-loop/switch region; other site 398527005954 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527005955 Walker A/P-loop; other site 398527005956 ATP binding site [chemical binding]; other site 398527005957 Q-loop/lid; other site 398527005958 ABC transporter signature motif; other site 398527005959 Walker B; other site 398527005960 D-loop; other site 398527005961 H-loop/switch region; other site 398527005962 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527005963 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398527005964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527005965 dimer interface [polypeptide binding]; other site 398527005966 conserved gate region; other site 398527005967 ABC-ATPase subunit interface; other site 398527005968 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527005969 dimer interface [polypeptide binding]; other site 398527005970 conserved gate region; other site 398527005971 putative PBP binding loops; other site 398527005972 ABC-ATPase subunit interface; other site 398527005973 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 398527005974 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 398527005975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005976 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527005977 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398527005978 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527005979 motif II; other site 398527005980 Predicted acetyltransferase [General function prediction only]; Region: COG3153 398527005981 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527005982 Coenzyme A binding pocket [chemical binding]; other site 398527005983 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398527005984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527005985 hypothetical protein; Provisional; Region: PRK05965 398527005986 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527005987 inhibitor-cofactor binding pocket; inhibition site 398527005988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527005989 catalytic residue [active] 398527005990 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527005991 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527005992 putative DNA binding site [nucleotide binding]; other site 398527005993 putative Zn2+ binding site [ion binding]; other site 398527005994 AsnC family; Region: AsnC_trans_reg; pfam01037 398527005995 transcriptional activator TtdR; Provisional; Region: PRK09801 398527005996 Helix-turn-helix domains; Region: HTH; cl00088 398527005997 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 398527005998 putative effector binding pocket; other site 398527005999 putative dimerization interface [polypeptide binding]; other site 398527006000 tartrate dehydrogenase; Provisional; Region: PRK08194 398527006001 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 398527006002 Cupin domain; Region: Cupin_2; cl09118 398527006003 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527006004 trimer interface [polypeptide binding]; other site 398527006005 eyelet of channel; other site 398527006006 benzoate transport; Region: 2A0115; TIGR00895 398527006007 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006008 putative substrate translocation pore; other site 398527006009 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006010 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398527006011 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 398527006012 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398527006013 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398527006014 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398527006015 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 398527006016 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527006017 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398527006018 tetramerization interface [polypeptide binding]; other site 398527006019 NAD(P) binding site [chemical binding]; other site 398527006020 catalytic residues [active] 398527006021 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006022 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527006023 putative substrate translocation pore; other site 398527006024 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527006025 active site 398527006026 Flavin Reductases; Region: FlaRed; cl00801 398527006027 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527006028 Helix-turn-helix domains; Region: HTH; cl00088 398527006029 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 398527006030 substrate binding pocket [chemical binding]; other site 398527006031 dimerization interface [polypeptide binding]; other site 398527006032 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398527006033 Helix-turn-helix domains; Region: HTH; cl00088 398527006034 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 398527006035 dimerization interface [polypeptide binding]; other site 398527006036 substrate binding pocket [chemical binding]; other site 398527006037 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398527006038 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006039 putative substrate translocation pore; other site 398527006040 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527006041 hypothetical protein; Validated; Region: PRK06201 398527006042 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 398527006043 Cupin domain; Region: Cupin_2; cl09118 398527006044 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006045 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527006046 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006047 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 398527006048 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 398527006049 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 398527006050 Helix-turn-helix domains; Region: HTH; cl00088 398527006051 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527006052 dimerization interface [polypeptide binding]; other site 398527006053 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527006054 DNA binding site [nucleotide binding] 398527006055 Predicted ATPase [General function prediction only]; Region: COG3903 398527006056 Predicted ATPase [General function prediction only]; Region: COG3903 398527006057 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398527006058 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527006059 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527006060 ligand binding site [chemical binding]; other site 398527006061 flexible hinge region; other site 398527006062 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 398527006063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006065 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 398527006066 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 398527006067 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 398527006068 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 398527006069 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398527006070 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527006071 ligand binding site [chemical binding]; other site 398527006072 flexible hinge region; other site 398527006073 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 398527006074 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 398527006075 active site 398527006076 Isochorismatase family; Region: Isochorismatase; pfam00857 398527006077 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 398527006078 catalytic triad [active] 398527006079 dimer interface [polypeptide binding]; other site 398527006080 conserved cis-peptide bond; other site 398527006081 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527006082 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527006083 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527006084 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006085 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527006086 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006087 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527006088 DNA binding site [nucleotide binding] 398527006089 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527006090 Predicted ATPase [General function prediction only]; Region: COG3903 398527006091 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 398527006092 Helix-turn-helix domains; Region: HTH; cl00088 398527006093 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527006094 dimerization interface [polypeptide binding]; other site 398527006095 substrate binding pocket [chemical binding]; other site 398527006096 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 398527006097 TPP-binding site [chemical binding]; other site 398527006098 dimer interface [polypeptide binding]; other site 398527006099 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 398527006100 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 398527006101 PYR/PP interface [polypeptide binding]; other site 398527006102 dimer interface [polypeptide binding]; other site 398527006103 TPP binding site [chemical binding]; other site 398527006104 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398527006105 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527006106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006107 NAD(P) binding site [chemical binding]; other site 398527006108 active site 398527006109 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398527006110 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 398527006111 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 398527006112 DctM-like transporters; Region: DctM; pfam06808 398527006113 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 398527006114 transketolase; Reviewed; Region: PRK05899 398527006115 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 398527006116 TPP-binding site [chemical binding]; other site 398527006117 dimer interface [polypeptide binding]; other site 398527006118 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 398527006119 PYR/PP interface [polypeptide binding]; other site 398527006120 dimer interface [polypeptide binding]; other site 398527006121 TPP binding site [chemical binding]; other site 398527006122 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398527006123 glycerate dehydrogenase; Provisional; Region: PRK06932 398527006124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006125 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527006126 classical (c) SDRs; Region: SDR_c; cd05233 398527006127 NAD(P) binding site [chemical binding]; other site 398527006128 active site 398527006129 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527006130 Helix-turn-helix domains; Region: HTH; cl00088 398527006131 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 398527006132 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 398527006133 Helix-turn-helix domains; Region: HTH; cl00088 398527006134 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527006135 dimerization interface [polypeptide binding]; other site 398527006136 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527006137 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527006138 Walker A/P-loop; other site 398527006139 ATP binding site [chemical binding]; other site 398527006140 Q-loop/lid; other site 398527006141 ABC transporter signature motif; other site 398527006142 Walker B; other site 398527006143 D-loop; other site 398527006144 H-loop/switch region; other site 398527006145 TOBE domain; Region: TOBE_2; cl01440 398527006146 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398527006147 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527006148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006149 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527006150 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527006151 dimer interface [polypeptide binding]; other site 398527006152 conserved gate region; other site 398527006153 putative PBP binding loops; other site 398527006154 ABC-ATPase subunit interface; other site 398527006155 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527006156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527006157 dimer interface [polypeptide binding]; other site 398527006158 conserved gate region; other site 398527006159 putative PBP binding loops; other site 398527006160 ABC-ATPase subunit interface; other site 398527006161 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 398527006162 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527006163 NAD binding site [chemical binding]; other site 398527006164 catalytic residues [active] 398527006165 choline dehydrogenase; Validated; Region: PRK02106 398527006166 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527006167 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398527006168 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527006169 NMT1-like family; Region: NMT1_2; cl15260 398527006170 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398527006171 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398527006172 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527006173 substrate binding pocket [chemical binding]; other site 398527006174 membrane-bound complex binding site; other site 398527006175 hinge residues; other site 398527006176 Merozoite surface protein 1 (MSP1) C-terminus; Region: MSP1_C; pfam07462 398527006177 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 398527006178 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527006179 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 398527006180 C-terminal domain interface [polypeptide binding]; other site 398527006181 GSH binding site (G-site) [chemical binding]; other site 398527006182 dimer interface [polypeptide binding]; other site 398527006183 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 398527006184 dimer interface [polypeptide binding]; other site 398527006185 N-terminal domain interface [polypeptide binding]; other site 398527006186 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 398527006187 GAF domain; Region: GAF; cl15785 398527006188 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527006189 Walker A motif; other site 398527006190 ATP binding site [chemical binding]; other site 398527006191 Walker B motif; other site 398527006192 arginine finger; other site 398527006193 Helix-turn-helix domains; Region: HTH; cl00088 398527006194 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 398527006195 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 398527006196 heme-binding site [chemical binding]; other site 398527006197 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 398527006198 FAD binding pocket [chemical binding]; other site 398527006199 FAD binding motif [chemical binding]; other site 398527006200 phosphate binding motif [ion binding]; other site 398527006201 beta-alpha-beta structure motif; other site 398527006202 NAD binding pocket [chemical binding]; other site 398527006203 Heme binding pocket [chemical binding]; other site 398527006204 Phasin protein; Region: Phasin_2; cl11491 398527006205 Cupin domain; Region: Cupin_2; cl09118 398527006206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006207 NAD(P) binding site [chemical binding]; other site 398527006208 active site 398527006209 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527006210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527006211 DNA-binding site [nucleotide binding]; DNA binding site 398527006212 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527006213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527006214 homodimer interface [polypeptide binding]; other site 398527006215 catalytic residue [active] 398527006216 Low affinity iron permease; Region: Iron_permease; cl12096 398527006217 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398527006218 Uncharacterized conserved protein [Function unknown]; Region: COG5476 398527006219 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 398527006220 MlrC C-terminus; Region: MlrC_C; pfam07171 398527006221 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006222 D-galactonate transporter; Region: 2A0114; TIGR00893 398527006223 putative substrate translocation pore; other site 398527006224 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527006225 Helix-turn-helix domains; Region: HTH; cl00088 398527006226 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527006227 dimerization interface [polypeptide binding]; other site 398527006228 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398527006229 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527006230 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527006231 DNA binding residues [nucleotide binding] 398527006232 dimerization interface [polypeptide binding]; other site 398527006233 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 398527006234 homodimer interface [polypeptide binding]; other site 398527006235 homotetramer interface [polypeptide binding]; other site 398527006236 active site pocket [active] 398527006237 cleavage site 398527006238 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 398527006239 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527006240 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 398527006241 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527006242 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527006243 ATP binding site [chemical binding]; other site 398527006244 Mg2+ binding site [ion binding]; other site 398527006245 G-X-G motif; other site 398527006246 Leucine carboxyl methyltransferase; Region: LCM; cl01306 398527006247 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527006248 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 398527006249 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 398527006250 Uncharacterized protein, linocin/CFP29 homolog [Function unknown]; Region: COG1659 398527006251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527006252 Helix-turn-helix domains; Region: HTH; cl00088 398527006253 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527006254 putative effector binding pocket; other site 398527006255 dimerization interface [polypeptide binding]; other site 398527006256 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527006257 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527006258 DNA-binding site [nucleotide binding]; DNA binding site 398527006259 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527006260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527006261 homodimer interface [polypeptide binding]; other site 398527006262 catalytic residue [active] 398527006263 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398527006264 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398527006265 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 398527006266 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 398527006267 Clp amino terminal domain; Region: Clp_N; pfam02861 398527006268 Clp amino terminal domain; Region: Clp_N; pfam02861 398527006269 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527006270 Walker A motif; other site 398527006271 ATP binding site [chemical binding]; other site 398527006272 Walker B motif; other site 398527006273 arginine finger; other site 398527006274 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527006275 Walker A motif; other site 398527006276 ATP binding site [chemical binding]; other site 398527006277 Walker B motif; other site 398527006278 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 398527006279 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 398527006280 Protein required for attachment to host cells; Region: Host_attach; cl02398 398527006281 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398527006282 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006283 putative substrate translocation pore; other site 398527006284 Helix-turn-helix domains; Region: HTH; cl00088 398527006285 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527006286 dimerization interface [polypeptide binding]; other site 398527006287 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 398527006288 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398527006289 putative NAD(P) binding site [chemical binding]; other site 398527006290 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527006291 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527006292 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 398527006293 DNA-binding site [nucleotide binding]; DNA binding site 398527006294 FCD domain; Region: FCD; cl11656 398527006295 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006296 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006297 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 398527006298 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 398527006299 Domain of unknown function (DUF336); Region: DUF336; cl01249 398527006300 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 398527006301 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398527006302 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527006303 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398527006304 Cytochrome c; Region: Cytochrom_C; cl11414 398527006305 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527006306 trimer interface [polypeptide binding]; other site 398527006307 eyelet of channel; other site 398527006308 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527006309 classical (c) SDRs; Region: SDR_c; cd05233 398527006310 NAD(P) binding site [chemical binding]; other site 398527006311 active site 398527006312 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006313 D-galactonate transporter; Region: 2A0114; TIGR00893 398527006314 putative substrate translocation pore; other site 398527006315 putative sialic acid transporter; Region: 2A0112; TIGR00891 398527006316 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006317 putative substrate translocation pore; other site 398527006318 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527006319 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527006320 DNA-binding site [nucleotide binding]; DNA binding site 398527006321 FCD domain; Region: FCD; cl11656 398527006322 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 398527006323 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398527006324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527006325 DNA-binding site [nucleotide binding]; DNA binding site 398527006326 UTRA domain; Region: UTRA; cl01230 398527006327 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398527006328 active site 398527006329 metal binding site [ion binding]; metal-binding site 398527006330 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006331 D-galactonate transporter; Region: 2A0114; TIGR00893 398527006332 putative substrate translocation pore; other site 398527006333 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 398527006334 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398527006335 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 398527006336 putative hydrophobic ligand binding site [chemical binding]; other site 398527006337 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527006338 Helix-turn-helix domains; Region: HTH; cl00088 398527006339 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398527006340 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527006341 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527006342 TM-ABC transporter signature motif; other site 398527006343 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 398527006344 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527006345 Walker A/P-loop; other site 398527006346 ATP binding site [chemical binding]; other site 398527006347 Q-loop/lid; other site 398527006348 ABC transporter signature motif; other site 398527006349 Walker B; other site 398527006350 D-loop; other site 398527006351 H-loop/switch region; other site 398527006352 Chromate transporter; Region: Chromate_transp; pfam02417 398527006353 Chromate transporter; Region: Chromate_transp; pfam02417 398527006354 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 398527006355 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527006356 DDE superfamily endonuclease; Region: DDE_4; cl15789 398527006357 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527006358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527006359 active site 398527006360 phosphorylation site [posttranslational modification] 398527006361 intermolecular recognition site; other site 398527006362 dimerization interface [polypeptide binding]; other site 398527006363 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527006364 DNA binding residues [nucleotide binding] 398527006365 dimerization interface [polypeptide binding]; other site 398527006366 Response regulator receiver domain; Region: Response_reg; pfam00072 398527006367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527006368 active site 398527006369 phosphorylation site [posttranslational modification] 398527006370 intermolecular recognition site; other site 398527006371 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 398527006372 dimerization interface [polypeptide binding]; other site 398527006373 PAS domain S-box; Region: sensory_box; TIGR00229 398527006374 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527006375 Histidine kinase; Region: HisKA_3; pfam07730 398527006376 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527006377 ATP binding site [chemical binding]; other site 398527006378 Mg2+ binding site [ion binding]; other site 398527006379 G-X-G motif; other site 398527006380 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527006381 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527006382 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527006383 dimer interface [polypeptide binding]; other site 398527006384 phosphorylation site [posttranslational modification] 398527006385 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527006386 ATP binding site [chemical binding]; other site 398527006387 Mg2+ binding site [ion binding]; other site 398527006388 G-X-G motif; other site 398527006389 Response regulator receiver domain; Region: Response_reg; pfam00072 398527006390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527006391 active site 398527006392 phosphorylation site [posttranslational modification] 398527006393 intermolecular recognition site; other site 398527006394 dimerization interface [polypeptide binding]; other site 398527006395 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527006396 PAS domain; Region: PAS_9; pfam13426 398527006397 putative active site [active] 398527006398 heme pocket [chemical binding]; other site 398527006399 PAS fold; Region: PAS_4; pfam08448 398527006400 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527006401 putative active site [active] 398527006402 heme pocket [chemical binding]; other site 398527006403 PAS fold; Region: PAS_4; pfam08448 398527006404 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527006405 putative active site [active] 398527006406 heme pocket [chemical binding]; other site 398527006407 PAS domain S-box; Region: sensory_box; TIGR00229 398527006408 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527006409 Histidine kinase; Region: HisKA_3; pfam07730 398527006410 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527006411 ATP binding site [chemical binding]; other site 398527006412 Mg2+ binding site [ion binding]; other site 398527006413 G-X-G motif; other site 398527006414 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006415 D-galactonate transporter; Region: 2A0114; TIGR00893 398527006416 putative substrate translocation pore; other site 398527006417 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398527006418 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398527006419 inhibitor site; inhibition site 398527006420 active site 398527006421 dimer interface [polypeptide binding]; other site 398527006422 catalytic residue [active] 398527006423 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527006424 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527006425 DNA binding site [nucleotide binding] 398527006426 domain linker motif; other site 398527006427 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 398527006428 putative ligand binding site [chemical binding]; other site 398527006429 putative dimerization interface [polypeptide binding]; other site 398527006430 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527006431 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527006432 ATP binding site [chemical binding]; other site 398527006433 Mg2+ binding site [ion binding]; other site 398527006434 G-X-G motif; other site 398527006435 Response regulator receiver domain; Region: Response_reg; pfam00072 398527006436 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527006437 active site 398527006438 phosphorylation site [posttranslational modification] 398527006439 intermolecular recognition site; other site 398527006440 dimerization interface [polypeptide binding]; other site 398527006441 Response regulator receiver domain; Region: Response_reg; pfam00072 398527006442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527006443 active site 398527006444 phosphorylation site [posttranslational modification] 398527006445 intermolecular recognition site; other site 398527006446 dimerization interface [polypeptide binding]; other site 398527006447 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 398527006448 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 398527006449 active site 398527006450 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527006451 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398527006452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006453 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006454 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527006455 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398527006456 conserved cys residue [active] 398527006457 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006458 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006459 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 398527006460 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 398527006461 NADP binding site [chemical binding]; other site 398527006462 active site 398527006463 putative substrate binding site [chemical binding]; other site 398527006464 Cupin domain; Region: Cupin_2; cl09118 398527006465 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 398527006466 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 398527006467 substrate binding site; other site 398527006468 tetramer interface; other site 398527006469 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 398527006470 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 398527006471 NAD binding site [chemical binding]; other site 398527006472 substrate binding site [chemical binding]; other site 398527006473 homodimer interface [polypeptide binding]; other site 398527006474 active site 398527006475 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006476 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527006477 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006478 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 398527006479 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 398527006480 putative active site [active] 398527006481 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 398527006482 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 398527006483 Ligand binding site; other site 398527006484 oligomer interface; other site 398527006485 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 398527006486 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527006487 active site 398527006488 motif I; other site 398527006489 motif II; other site 398527006490 NeuB family; Region: NeuB; cl00496 398527006491 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398527006492 tyrosine kinase; Provisional; Region: PRK11519 398527006493 Chain length determinant protein; Region: Wzz; cl15801 398527006494 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 398527006495 Chain length determinant protein; Region: Wzz; cl15801 398527006496 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527006497 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398527006498 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398527006499 active site 398527006500 polysaccharide export protein Wza; Provisional; Region: PRK15078 398527006501 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398527006502 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 398527006503 Bacterial sugar transferase; Region: Bac_transf; cl00939 398527006504 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398527006505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006506 NAD(P) binding site [chemical binding]; other site 398527006507 active site 398527006508 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527006509 active site 398527006510 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 398527006511 MatE; Region: MatE; cl10513 398527006512 putative lipopolysaccharide biosynthesis O-acetyl transferase WbbJ; Provisional; Region: PRK09677 398527006513 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 398527006514 trimer interface [polypeptide binding]; other site 398527006515 active site 398527006516 substrate binding site [chemical binding]; other site 398527006517 CoA binding site [chemical binding]; other site 398527006518 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 398527006519 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 398527006520 Substrate binding site; other site 398527006521 Cupin domain; Region: Cupin_2; cl09118 398527006522 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 398527006523 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 398527006524 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527006525 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398527006526 conserved cys residue [active] 398527006527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006528 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006529 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 398527006530 active site 398527006531 tetramer interface; other site 398527006532 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 398527006533 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 398527006534 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 398527006535 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006536 D-galactonate transporter; Region: 2A0114; TIGR00893 398527006537 putative substrate translocation pore; other site 398527006538 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006539 putative substrate translocation pore; other site 398527006540 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 398527006541 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 398527006542 active site 398527006543 tetramer interface [polypeptide binding]; other site 398527006544 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527006545 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527006546 DNA-binding site [nucleotide binding]; DNA binding site 398527006547 FCD domain; Region: FCD; cl11656 398527006548 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 398527006549 conserved cys residue [active] 398527006550 Helix-turn-helix domain; Region: HTH_18; pfam12833 398527006551 Predicted acetyltransferase [General function prediction only]; Region: COG3393 398527006552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527006553 Coenzyme A binding pocket [chemical binding]; other site 398527006554 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 398527006555 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 398527006556 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 398527006557 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 398527006558 YCII-related domain; Region: YCII; cl00999 398527006559 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398527006560 Helix-turn-helix domains; Region: HTH; cl00088 398527006561 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527006562 dimerization interface [polypeptide binding]; other site 398527006563 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398527006564 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527006565 dimer interface [polypeptide binding]; other site 398527006566 conserved gate region; other site 398527006567 putative PBP binding loops; other site 398527006568 ABC-ATPase subunit interface; other site 398527006569 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 398527006570 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527006571 dimer interface [polypeptide binding]; other site 398527006572 conserved gate region; other site 398527006573 putative PBP binding loops; other site 398527006574 ABC-ATPase subunit interface; other site 398527006575 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 398527006576 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527006577 Walker A/P-loop; other site 398527006578 ATP binding site [chemical binding]; other site 398527006579 Q-loop/lid; other site 398527006580 ABC transporter signature motif; other site 398527006581 Walker B; other site 398527006582 D-loop; other site 398527006583 H-loop/switch region; other site 398527006584 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527006585 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 398527006586 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527006587 Walker A/P-loop; other site 398527006588 ATP binding site [chemical binding]; other site 398527006589 Q-loop/lid; other site 398527006590 ABC transporter signature motif; other site 398527006591 Walker B; other site 398527006592 D-loop; other site 398527006593 H-loop/switch region; other site 398527006594 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527006595 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 398527006596 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 398527006597 Predicted acyl esterases [General function prediction only]; Region: COG2936 398527006598 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 398527006599 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527006600 trimer interface [polypeptide binding]; other site 398527006601 eyelet of channel; other site 398527006602 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 398527006603 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 398527006604 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 398527006605 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398527006606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527006607 dimer interface [polypeptide binding]; other site 398527006608 conserved gate region; other site 398527006609 putative PBP binding loops; other site 398527006610 ABC-ATPase subunit interface; other site 398527006611 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 398527006612 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527006613 dimer interface [polypeptide binding]; other site 398527006614 conserved gate region; other site 398527006615 putative PBP binding loops; other site 398527006616 ABC-ATPase subunit interface; other site 398527006617 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 398527006618 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527006619 Walker A/P-loop; other site 398527006620 ATP binding site [chemical binding]; other site 398527006621 Q-loop/lid; other site 398527006622 ABC transporter signature motif; other site 398527006623 Walker B; other site 398527006624 D-loop; other site 398527006625 H-loop/switch region; other site 398527006626 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 398527006627 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527006628 Walker A/P-loop; other site 398527006629 ATP binding site [chemical binding]; other site 398527006630 Q-loop/lid; other site 398527006631 ABC transporter signature motif; other site 398527006632 Walker B; other site 398527006633 D-loop; other site 398527006634 H-loop/switch region; other site 398527006635 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398527006636 FOG: CBS domain [General function prediction only]; Region: COG0517 398527006637 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 398527006638 BON domain; Region: BON; cl02771 398527006639 Chromate transporter; Region: Chromate_transp; pfam02417 398527006640 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 398527006641 Chromate transporter; Region: Chromate_transp; pfam02417 398527006642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006643 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 398527006644 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398527006645 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527006646 Ligand Binding Site [chemical binding]; other site 398527006647 PAS domain S-box; Region: sensory_box; TIGR00229 398527006648 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527006649 putative active site [active] 398527006650 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527006651 heme pocket [chemical binding]; other site 398527006652 Histidine kinase; Region: HisKA_3; pfam07730 398527006653 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527006654 ATP binding site [chemical binding]; other site 398527006655 Mg2+ binding site [ion binding]; other site 398527006656 G-X-G motif; other site 398527006657 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527006658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527006659 active site 398527006660 phosphorylation site [posttranslational modification] 398527006661 intermolecular recognition site; other site 398527006662 dimerization interface [polypeptide binding]; other site 398527006663 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527006664 DNA binding residues [nucleotide binding] 398527006665 dimerization interface [polypeptide binding]; other site 398527006666 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527006667 active site 398527006668 phosphorylation site [posttranslational modification] 398527006669 intermolecular recognition site; other site 398527006670 dimerization interface [polypeptide binding]; other site 398527006671 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 398527006672 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527006673 ligand binding site [chemical binding]; other site 398527006674 flexible hinge region; other site 398527006675 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 398527006676 putative switch regulator; other site 398527006677 non-specific DNA interactions [nucleotide binding]; other site 398527006678 DNA binding site [nucleotide binding] 398527006679 sequence specific DNA binding site [nucleotide binding]; other site 398527006680 putative cAMP binding site [chemical binding]; other site 398527006681 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398527006682 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 398527006683 putative NAD(P) binding site [chemical binding]; other site 398527006684 putative substrate binding site [chemical binding]; other site 398527006685 catalytic Zn binding site [ion binding]; other site 398527006686 structural Zn binding site [ion binding]; other site 398527006687 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398527006688 Cytochrome c; Region: Cytochrom_C; cl11414 398527006689 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 398527006690 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 398527006691 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 398527006692 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 398527006693 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 398527006694 HSP70 interaction site [polypeptide binding]; other site 398527006695 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 398527006696 substrate binding site [polypeptide binding]; other site 398527006697 dimer interface [polypeptide binding]; other site 398527006698 Malonate transporter MadL subunit; Region: MadL; cl04273 398527006699 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 398527006700 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527006701 Helix-turn-helix domains; Region: HTH; cl00088 398527006702 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 398527006703 putative dimerization interface [polypeptide binding]; other site 398527006704 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 398527006705 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527006706 ATP binding site [chemical binding]; other site 398527006707 putative Mg++ binding site [ion binding]; other site 398527006708 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527006709 nucleotide binding region [chemical binding]; other site 398527006710 ATP-binding site [chemical binding]; other site 398527006711 Protein of unknown function DUF72; Region: DUF72; cl00777 398527006712 Cupin domain; Region: Cupin_2; cl09118 398527006713 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006714 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527006715 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527006716 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398527006717 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398527006718 NADP binding site [chemical binding]; other site 398527006719 active site 398527006720 steroid binding site; other site 398527006721 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 398527006722 NADP binding site [chemical binding]; other site 398527006723 substrate binding site [chemical binding]; other site 398527006724 active site 398527006725 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 398527006726 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527006727 PYR/PP interface [polypeptide binding]; other site 398527006728 dimer interface [polypeptide binding]; other site 398527006729 TPP binding site [chemical binding]; other site 398527006730 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527006731 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 398527006732 TPP-binding site [chemical binding]; other site 398527006733 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398527006734 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527006735 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527006736 dimer interface [polypeptide binding]; other site 398527006737 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 398527006738 putative CheW interface [polypeptide binding]; other site 398527006739 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398527006740 HetN oxidoreductase-like, classical (c) SDR; Region: HetN_like_SDR_c; cd08932 398527006741 putative NAD(P) binding site [chemical binding]; other site 398527006742 active site 398527006743 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527006744 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398527006745 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527006746 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527006747 dimer interface [polypeptide binding]; other site 398527006748 conserved gate region; other site 398527006749 putative PBP binding loops; other site 398527006750 ABC-ATPase subunit interface; other site 398527006751 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527006752 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527006753 substrate binding pocket [chemical binding]; other site 398527006754 membrane-bound complex binding site; other site 398527006755 hinge residues; other site 398527006756 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398527006757 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 398527006758 Walker A/P-loop; other site 398527006759 ATP binding site [chemical binding]; other site 398527006760 Q-loop/lid; other site 398527006761 ABC transporter signature motif; other site 398527006762 Walker B; other site 398527006763 D-loop; other site 398527006764 H-loop/switch region; other site 398527006765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006766 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527006767 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398527006768 Helix-turn-helix domains; Region: HTH; cl00088 398527006769 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 398527006770 putative dimerization interface [polypeptide binding]; other site 398527006771 rod shape-determining protein MreB; Provisional; Region: PRK13930 398527006772 Cell division protein FtsA; Region: FtsA; cl11496 398527006773 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 398527006774 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 398527006775 Ligand binding site [chemical binding]; other site 398527006776 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398527006777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006778 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527006779 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 398527006780 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 398527006781 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 398527006782 MOSC domain; Region: MOSC; pfam03473 398527006783 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 398527006784 active site 398527006785 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 398527006786 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527006787 Na binding site [ion binding]; other site 398527006788 Arginase family; Region: Arginase; cl00306 398527006789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527006790 Helix-turn-helix domains; Region: HTH; cl00088 398527006791 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527006792 dimerization interface [polypeptide binding]; other site 398527006793 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 398527006794 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 398527006795 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 398527006796 putative ion selectivity filter; other site 398527006797 putative pore gating glutamate residue; other site 398527006798 putative H+/Cl- coupling transport residue; other site 398527006799 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 398527006800 Helix-turn-helix domains; Region: HTH; cl00088 398527006801 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 398527006802 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527006803 Ligand Binding Site [chemical binding]; other site 398527006804 hypothetical protein; Provisional; Region: PRK10316 398527006805 YfdX protein; Region: YfdX; pfam10938 398527006806 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 398527006807 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 398527006808 short chain dehydrogenase; Provisional; Region: PRK07109 398527006809 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 398527006810 putative NAD(P) binding site [chemical binding]; other site 398527006811 active site 398527006812 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 398527006813 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 398527006814 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 398527006815 [2Fe-2S] cluster binding site [ion binding]; other site 398527006816 thiamine pyrophosphate protein; Provisional; Region: PRK08273 398527006817 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 398527006818 PYR/PP interface [polypeptide binding]; other site 398527006819 dimer interface [polypeptide binding]; other site 398527006820 tetramer interface [polypeptide binding]; other site 398527006821 TPP binding site [chemical binding]; other site 398527006822 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527006823 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 398527006824 TPP-binding site [chemical binding]; other site 398527006825 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_3; cd03328 398527006826 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398527006827 putative active site pocket [active] 398527006828 putative metal binding site [ion binding]; other site 398527006829 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 398527006830 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398527006831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006832 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527006833 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 398527006834 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 398527006835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527006836 DNA-binding site [nucleotide binding]; DNA binding site 398527006837 FCD domain; Region: FCD; cl11656 398527006838 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 398527006839 FAD binding domain; Region: FAD_binding_4; pfam01565 398527006840 FAD binding domain; Region: FAD_binding_4; pfam01565 398527006841 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 398527006842 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 398527006843 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 398527006844 Cysteine-rich domain; Region: CCG; pfam02754 398527006845 Cysteine-rich domain; Region: CCG; pfam02754 398527006846 Domain of unknown function (DUF336); Region: DUF336; cl01249 398527006847 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 398527006848 active site 398527006849 DDE superfamily endonuclease; Region: DDE_4; cl15789 398527006850 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398527006851 DDE superfamily endonuclease; Region: DDE_4; cl15789 398527006852 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398527006853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006854 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 398527006855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006856 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 398527006857 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 398527006858 phosphate binding site [ion binding]; other site 398527006859 Dehydratase family; Region: ILVD_EDD; cl00340 398527006860 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527006861 trimer interface [polypeptide binding]; other site 398527006862 eyelet of channel; other site 398527006863 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527006864 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527006865 putative substrate translocation pore; other site 398527006866 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527006867 trimer interface [polypeptide binding]; other site 398527006868 eyelet of channel; other site 398527006869 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 398527006870 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 398527006871 dimerization interface [polypeptide binding]; other site 398527006872 ligand binding site [chemical binding]; other site 398527006873 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527006874 Helix-turn-helix domains; Region: HTH; cl00088 398527006875 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527006876 dimerization interface [polypeptide binding]; other site 398527006877 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 398527006878 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 398527006879 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527006880 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527006881 catalytic residue [active] 398527006882 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 398527006883 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 398527006884 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527006885 TM-ABC transporter signature motif; other site 398527006886 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527006887 TM-ABC transporter signature motif; other site 398527006888 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527006889 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527006890 Walker A/P-loop; other site 398527006891 ATP binding site [chemical binding]; other site 398527006892 Q-loop/lid; other site 398527006893 ABC transporter signature motif; other site 398527006894 Walker B; other site 398527006895 D-loop; other site 398527006896 H-loop/switch region; other site 398527006897 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527006898 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527006899 Walker A/P-loop; other site 398527006900 ATP binding site [chemical binding]; other site 398527006901 Q-loop/lid; other site 398527006902 ABC transporter signature motif; other site 398527006903 Walker B; other site 398527006904 D-loop; other site 398527006905 H-loop/switch region; other site 398527006906 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 398527006907 active site 398527006908 substrate binding pocket [chemical binding]; other site 398527006909 homodimer interaction site [polypeptide binding]; other site 398527006910 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 398527006911 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527006912 inhibitor-cofactor binding pocket; inhibition site 398527006913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527006914 catalytic residue [active] 398527006915 tetracycline repressor protein TetR; Provisional; Region: PRK13756 398527006916 Helix-turn-helix domains; Region: HTH; cl00088 398527006917 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 398527006918 indole acetimide hydrolase; Validated; Region: PRK07488 398527006919 Amidase; Region: Amidase; cl11426 398527006920 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 398527006921 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527006922 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527006923 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527006924 dimer interface [polypeptide binding]; other site 398527006925 putative CheW interface [polypeptide binding]; other site 398527006926 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527006927 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527006928 active site 398527006929 catalytic tetrad [active] 398527006930 NmrA (a transcriptional regulator) and triphenylmethane reductase (TMR) like proteins, subgroup 1, atypical (a) SDRs; Region: NmrA_TMR_like_1_SDR_a; cd05231 398527006931 NmrA-like family; Region: NmrA; pfam05368 398527006932 putative NADP binding site [chemical binding]; other site 398527006933 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527006934 Helix-turn-helix domains; Region: HTH; cl00088 398527006935 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527006936 putative effector binding pocket; other site 398527006937 dimerization interface [polypeptide binding]; other site 398527006938 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527006939 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527006940 DNA binding site [nucleotide binding] 398527006941 domain linker motif; other site 398527006942 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398527006943 Winged helix-turn helix; Region: HTH_29; pfam13551 398527006944 Helix-turn-helix domains; Region: HTH; cl00088 398527006945 Helix-turn-helix domains; Region: HTH; cl00088 398527006946 Integrase core domain; Region: rve; cl01316 398527006947 Integrase core domain; Region: rve_3; cl15866 398527006948 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 398527006949 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 398527006950 trimer interface [polypeptide binding]; other site 398527006951 putative metal binding site [ion binding]; other site 398527006952 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 398527006953 Na binding site [ion binding]; other site 398527006954 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527006955 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527006956 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398527006957 FAD binding domain; Region: FAD_binding_4; pfam01565 398527006958 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398527006959 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 398527006960 putative active site [active] 398527006961 metal binding site [ion binding]; metal-binding site 398527006962 NIPSNAP; Region: NIPSNAP; pfam07978 398527006963 Integrase core domain; Region: rve; cl01316 398527006964 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398527006965 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527006966 Walker A motif; other site 398527006967 ATP binding site [chemical binding]; other site 398527006968 Walker B motif; other site 398527006969 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 398527006970 Helix-turn-helix domains; Region: HTH; cl00088 398527006971 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 398527006972 AMP-binding enzyme; Region: AMP-binding; cl15778 398527006973 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527006974 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527006975 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 398527006976 putative NAD(P) binding site [chemical binding]; other site 398527006977 putative active site [active] 398527006978 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527006979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527006980 Helix-turn-helix domains; Region: HTH; cl00088 398527006981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527006982 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 398527006983 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 398527006984 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398527006985 AMP-binding enzyme; Region: AMP-binding; cl15778 398527006986 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527006987 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527006988 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527006989 Walker A/P-loop; other site 398527006990 ATP binding site [chemical binding]; other site 398527006991 Q-loop/lid; other site 398527006992 ABC transporter signature motif; other site 398527006993 Walker B; other site 398527006994 D-loop; other site 398527006995 H-loop/switch region; other site 398527006996 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527006997 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527006998 Walker A/P-loop; other site 398527006999 ATP binding site [chemical binding]; other site 398527007000 Q-loop/lid; other site 398527007001 ABC transporter signature motif; other site 398527007002 Walker B; other site 398527007003 D-loop; other site 398527007004 H-loop/switch region; other site 398527007005 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527007006 TM-ABC transporter signature motif; other site 398527007007 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527007008 TM-ABC transporter signature motif; other site 398527007009 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527007010 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 398527007011 putative ligand binding site [chemical binding]; other site 398527007012 short chain dehydrogenase; Provisional; Region: PRK06138 398527007013 classical (c) SDRs; Region: SDR_c; cd05233 398527007014 NAD(P) binding site [chemical binding]; other site 398527007015 active site 398527007016 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398527007017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527007018 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398527007019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527007020 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398527007021 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 398527007022 active site pocket [active] 398527007023 Cupin domain; Region: Cupin_2; cl09118 398527007024 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527007025 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527007026 DNA-binding site [nucleotide binding]; DNA binding site 398527007027 FCD domain; Region: FCD; cl11656 398527007028 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527007029 D-galactonate transporter; Region: 2A0114; TIGR00893 398527007030 putative substrate translocation pore; other site 398527007031 AAA domain; Region: AAA_22; pfam13401 398527007032 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527007033 Walker A motif; other site 398527007034 ATP binding site [chemical binding]; other site 398527007035 Walker B motif; other site 398527007036 arginine finger; other site 398527007037 Winged helix-turn helix; Region: HTH_29; pfam13551 398527007038 Integrase core domain; Region: rve; cl01316 398527007039 Integrase core domain; Region: rve_3; cl15866 398527007040 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398527007041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007042 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 398527007043 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398527007044 putative homodimer interface [polypeptide binding]; other site 398527007045 putative active site [active] 398527007046 catalytic site [active] 398527007047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007048 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 398527007049 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 398527007050 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 398527007051 Family description; Region: UvrD_C_2; cl15862 398527007052 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 398527007053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007054 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 398527007055 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007056 Walker A/P-loop; other site 398527007057 ATP binding site [chemical binding]; other site 398527007058 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 398527007059 putative active site [active] 398527007060 putative metal-binding site [ion binding]; other site 398527007061 Domain of unknown function (DUF932); Region: DUF932; cl12129 398527007062 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527007063 active site 398527007064 DNA binding site [nucleotide binding] 398527007065 Int/Topo IB signature motif; other site 398527007066 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527007067 active site 398527007068 DNA binding site [nucleotide binding] 398527007069 Int/Topo IB signature motif; other site 398527007070 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 398527007071 Domain of unknown function (DUF932); Region: DUF932; cl12129 398527007072 ParB-like nuclease domain; Region: ParBc; cl02129 398527007073 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 398527007074 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 398527007075 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527007076 non-specific DNA binding site [nucleotide binding]; other site 398527007077 salt bridge; other site 398527007078 sequence-specific DNA binding site [nucleotide binding]; other site 398527007079 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 398527007080 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 398527007081 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 398527007082 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 398527007083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007084 Walker A motif; other site 398527007085 ATP binding site [chemical binding]; other site 398527007086 Walker B motif; other site 398527007087 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 398527007088 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 398527007089 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 398527007090 Walker A motif; other site 398527007091 hexamer interface [polypeptide binding]; other site 398527007092 ATP binding site [chemical binding]; other site 398527007093 Walker B motif; other site 398527007094 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 398527007095 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 398527007096 VirB7 interaction site; other site 398527007097 VirB8 protein; Region: VirB8; cl01500 398527007098 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 398527007099 Type IV secretion system proteins; Region: T4SS; pfam07996 398527007100 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 398527007101 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 398527007102 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 398527007103 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 398527007104 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527007105 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527007106 catalytic residue [active] 398527007107 Condensation domain; Region: Condensation; pfam00668 398527007108 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398527007109 ACT domain; Region: ACT_3; pfam10000 398527007110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 398527007111 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 398527007112 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 398527007113 Fatty acid desaturase; Region: FA_desaturase; pfam00487 398527007114 putative di-iron ligands [ion binding]; other site 398527007115 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 398527007116 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527007117 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 398527007118 Helix-turn-helix domains; Region: HTH; cl00088 398527007119 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527007120 dimerization interface [polypeptide binding]; other site 398527007121 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 398527007122 Cache domain; Region: Cache_2; cl07034 398527007123 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527007124 dimer interface [polypeptide binding]; other site 398527007125 putative CheW interface [polypeptide binding]; other site 398527007126 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 398527007127 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 398527007128 Integrase core domain; Region: rve; cl01316 398527007129 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 398527007130 Helix-turn-helix domains; Region: HTH; cl00088 398527007131 Protein of unknown function (DUF979); Region: DUF979; cl01572 398527007132 Protein of unknown function (DUF969); Region: DUF969; cl01573 398527007133 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 398527007134 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527007135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527007136 homodimer interface [polypeptide binding]; other site 398527007137 catalytic residue [active] 398527007138 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398527007139 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527007140 Walker A motif; other site 398527007141 ATP binding site [chemical binding]; other site 398527007142 Walker B motif; other site 398527007143 Integrase core domain; Region: rve; cl01316 398527007144 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527007145 trimer interface [polypeptide binding]; other site 398527007146 eyelet of channel; other site 398527007147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527007148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527007149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527007150 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 398527007151 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 398527007152 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527007153 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 398527007154 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 398527007155 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 398527007156 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 398527007157 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527007158 Helix-turn-helix domains; Region: HTH; cl00088 398527007159 AsnC family; Region: AsnC_trans_reg; pfam01037 398527007160 LrgA family; Region: LrgA; cl00608 398527007161 LrgB-like family; Region: LrgB; cl00596 398527007162 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527007163 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527007164 dimer interface [polypeptide binding]; other site 398527007165 conserved gate region; other site 398527007166 putative PBP binding loops; other site 398527007167 ABC-ATPase subunit interface; other site 398527007168 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527007169 dimer interface [polypeptide binding]; other site 398527007170 conserved gate region; other site 398527007171 putative PBP binding loops; other site 398527007172 ABC-ATPase subunit interface; other site 398527007173 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527007174 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007175 Walker A/P-loop; other site 398527007176 ATP binding site [chemical binding]; other site 398527007177 Q-loop/lid; other site 398527007178 ABC transporter signature motif; other site 398527007179 Walker B; other site 398527007180 D-loop; other site 398527007181 H-loop/switch region; other site 398527007182 TOBE domain; Region: TOBE_2; cl01440 398527007183 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 398527007184 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527007185 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398527007186 Helix-turn-helix domains; Region: HTH; cl00088 398527007187 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 398527007188 putative dimerization interface [polypeptide binding]; other site 398527007189 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527007190 active site 398527007191 Int/Topo IB signature motif; other site 398527007192 DNA binding site [nucleotide binding] 398527007193 integrase; Provisional; Region: PRK09692 398527007194 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 398527007195 active site 398527007196 Int/Topo IB signature motif; other site 398527007197 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527007198 Helix-turn-helix domains; Region: HTH; cl00088 398527007199 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 398527007200 active site 398527007201 Int/Topo IB signature motif; other site 398527007202 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 398527007203 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 398527007204 G1 box; other site 398527007205 putative GEF interaction site [polypeptide binding]; other site 398527007206 GTP/Mg2+ binding site [chemical binding]; other site 398527007207 Switch I region; other site 398527007208 G2 box; other site 398527007209 G3 box; other site 398527007210 Switch II region; other site 398527007211 G4 box; other site 398527007212 G5 box; other site 398527007213 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 398527007214 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 398527007215 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 398527007216 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 398527007217 selenocysteine synthase; Provisional; Region: PRK04311 398527007218 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 398527007219 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527007220 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527007221 catalytic residue [active] 398527007222 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 398527007223 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 398527007224 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398527007225 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 398527007226 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 398527007227 4Fe-4S binding domain; Region: Fer4; cl02805 398527007228 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 398527007229 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398527007230 molybdopterin cofactor binding site; other site 398527007231 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 398527007232 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 398527007233 molybdopterin cofactor binding site; other site 398527007234 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 398527007235 selenophosphate synthetase; Provisional; Region: PRK00943 398527007236 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 398527007237 dimerization interface [polypeptide binding]; other site 398527007238 putative ATP binding site [chemical binding]; other site 398527007239 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 398527007240 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 398527007241 active site residue [active] 398527007242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007243 Predicted permease; Region: DUF318; pfam03773 398527007244 dihydroxyacetone kinase; Provisional; Region: PRK14479 398527007245 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 398527007246 DAK2 domain; Region: Dak2; cl03685 398527007247 Uncharacterized conserved protein [Function unknown]; Region: COG5476 398527007248 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 398527007249 MlrC C-terminus; Region: MlrC_C; pfam07171 398527007250 allantoate amidohydrolase; Reviewed; Region: PRK12893 398527007251 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398527007252 active site 398527007253 metal binding site [ion binding]; metal-binding site 398527007254 dimer interface [polypeptide binding]; other site 398527007255 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527007256 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527007257 Walker A/P-loop; other site 398527007258 ATP binding site [chemical binding]; other site 398527007259 Q-loop/lid; other site 398527007260 ABC transporter signature motif; other site 398527007261 Walker B; other site 398527007262 D-loop; other site 398527007263 H-loop/switch region; other site 398527007264 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527007265 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527007266 Walker A/P-loop; other site 398527007267 ATP binding site [chemical binding]; other site 398527007268 Q-loop/lid; other site 398527007269 ABC transporter signature motif; other site 398527007270 Walker B; other site 398527007271 D-loop; other site 398527007272 H-loop/switch region; other site 398527007273 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527007274 TM-ABC transporter signature motif; other site 398527007275 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527007276 TM-ABC transporter signature motif; other site 398527007277 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 398527007278 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527007279 putative ligand binding site [chemical binding]; other site 398527007280 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527007281 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527007282 DNA-binding site [nucleotide binding]; DNA binding site 398527007283 FCD domain; Region: FCD; cl11656 398527007284 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 398527007285 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 398527007286 Integrase core domain; Region: rve; cl01316 398527007287 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 398527007288 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 398527007289 Helix-turn-helix domains; Region: HTH; cl00088 398527007290 AAA domain; Region: AAA_22; pfam13401 398527007291 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527007292 Walker A motif; other site 398527007293 ATP binding site [chemical binding]; other site 398527007294 Walker B motif; other site 398527007295 arginine finger; other site 398527007296 Winged helix-turn helix; Region: HTH_29; pfam13551 398527007297 Integrase core domain; Region: rve; cl01316 398527007298 Integrase core domain; Region: rve_3; cl15866 398527007299 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 398527007300 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 398527007301 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398527007302 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 398527007303 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527007304 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398527007305 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527007306 DNA binding residues [nucleotide binding] 398527007307 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 398527007308 Peptidase family M48; Region: Peptidase_M48; cl12018 398527007309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 398527007310 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 398527007311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 398527007312 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 398527007313 Predicted secreted protein [Function unknown]; Region: COG5445 398527007314 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 398527007315 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 398527007316 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 398527007317 MG2 domain; Region: A2M_N; pfam01835 398527007318 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 398527007319 Alpha-2-macroglobulin family; Region: A2M; pfam00207 398527007320 Alpha-macro-globulin thiol-ester bond-forming region; Region: Thiol-ester_cl; pfam10569 398527007321 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 398527007322 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; cl01916 398527007323 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 398527007324 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527007325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527007326 homodimer interface [polypeptide binding]; other site 398527007327 catalytic residue [active] 398527007328 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527007329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527007330 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527007331 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 398527007332 tetrameric interface [polypeptide binding]; other site 398527007333 NAD binding site [chemical binding]; other site 398527007334 catalytic residues [active] 398527007335 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527007336 Helix-turn-helix domains; Region: HTH; cl00088 398527007337 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 398527007338 putative dimerization interface [polypeptide binding]; other site 398527007339 Response regulator receiver domain; Region: Response_reg; pfam00072 398527007340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527007341 active site 398527007342 phosphorylation site [posttranslational modification] 398527007343 intermolecular recognition site; other site 398527007344 dimerization interface [polypeptide binding]; other site 398527007345 benzoate transport; Region: 2A0115; TIGR00895 398527007346 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527007347 putative substrate translocation pore; other site 398527007348 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527007349 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 398527007350 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 398527007351 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527007352 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527007353 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527007354 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527007355 active site 398527007356 Uncharacterized conserved protein [Function unknown]; Region: COG3777 398527007357 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 398527007358 SAV4209 is a Streptomyces avermitilis protein with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The alpha- and...; Region: SAV4209; cd03455 398527007359 putative active site [active] 398527007360 putative catalytic site [active] 398527007361 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527007362 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 398527007363 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398527007364 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 398527007365 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398527007366 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398527007367 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398527007368 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 398527007369 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 398527007370 citrate-proton symporter; Provisional; Region: PRK15075 398527007371 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527007372 putative substrate translocation pore; other site 398527007373 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527007374 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527007375 trimer interface [polypeptide binding]; other site 398527007376 eyelet of channel; other site 398527007377 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398527007378 Helix-turn-helix domains; Region: HTH; cl00088 398527007379 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 398527007380 putative dimerization interface [polypeptide binding]; other site 398527007381 putative substrate binding pocket [chemical binding]; other site 398527007382 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 398527007383 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007384 Walker A motif; other site 398527007385 ATP binding site [chemical binding]; other site 398527007386 Walker B motif; other site 398527007387 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007388 hypothetical protein; Provisional; Region: PRK04328 398527007389 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007390 Walker A motif; other site 398527007391 Walker A motif; other site 398527007392 ATP binding site [chemical binding]; other site 398527007393 ATP binding site [chemical binding]; other site 398527007394 Walker B motif; other site 398527007395 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527007396 dimer interface [polypeptide binding]; other site 398527007397 phosphorylation site [posttranslational modification] 398527007398 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527007399 ATP binding site [chemical binding]; other site 398527007400 G-X-G motif; other site 398527007401 Response regulator receiver domain; Region: Response_reg; pfam00072 398527007402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527007403 active site 398527007404 phosphorylation site [posttranslational modification] 398527007405 intermolecular recognition site; other site 398527007406 dimerization interface [polypeptide binding]; other site 398527007407 Helix-turn-helix domains; Region: HTH; cl00088 398527007408 Fusaric acid resistance protein family; Region: FUSC; pfam04632 398527007409 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 398527007410 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 398527007411 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 398527007412 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527007413 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527007414 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527007415 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398527007416 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527007417 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527007418 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527007419 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527007420 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527007421 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527007422 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527007423 TM-ABC transporter signature motif; other site 398527007424 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 398527007425 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527007426 Walker A/P-loop; other site 398527007427 ATP binding site [chemical binding]; other site 398527007428 Q-loop/lid; other site 398527007429 ABC transporter signature motif; other site 398527007430 Walker B; other site 398527007431 D-loop; other site 398527007432 H-loop/switch region; other site 398527007433 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527007434 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 398527007435 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 398527007436 putative ligand binding site [chemical binding]; other site 398527007437 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 398527007438 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 398527007439 putative dimerization interface [polypeptide binding]; other site 398527007440 putative ligand binding site [chemical binding]; other site 398527007441 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527007442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527007443 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 398527007444 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 398527007445 active site 398527007446 catalytic residues [active] 398527007447 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398527007448 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 398527007449 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527007450 Cupin domain; Region: Cupin_2; cl09118 398527007451 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 398527007452 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 398527007453 NlpC/P60 family; Region: NLPC_P60; cl11438 398527007454 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527007455 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398527007456 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527007457 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398527007458 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527007459 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527007460 dimer interface [polypeptide binding]; other site 398527007461 putative CheW interface [polypeptide binding]; other site 398527007462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527007463 Helix-turn-helix domains; Region: HTH; cl00088 398527007464 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527007465 dimerization interface [polypeptide binding]; other site 398527007466 Sulfatase; Region: Sulfatase; cl10460 398527007467 choline-sulfatase; Region: chol_sulfatase; TIGR03417 398527007468 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527007469 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527007470 putative substrate translocation pore; other site 398527007471 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398527007472 FAD binding domain; Region: FAD_binding_4; pfam01565 398527007473 YCII-related domain; Region: YCII; cl00999 398527007474 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527007475 Helix-turn-helix domains; Region: HTH; cl00088 398527007476 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527007477 putative effector binding pocket; other site 398527007478 dimerization interface [polypeptide binding]; other site 398527007479 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527007480 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527007481 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 398527007482 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 398527007483 active site 398527007484 non-prolyl cis peptide bond; other site 398527007485 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398527007486 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398527007487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527007488 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527007489 NAD(P) binding site [chemical binding]; other site 398527007490 active site 398527007491 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527007492 classical (c) SDRs; Region: SDR_c; cd05233 398527007493 NAD(P) binding site [chemical binding]; other site 398527007494 active site 398527007495 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 398527007496 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527007497 active site 398527007498 DNA binding site [nucleotide binding] 398527007499 Int/Topo IB signature motif; other site 398527007500 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 398527007501 Putative transposase; Region: Y2_Tnp; pfam04986 398527007502 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 398527007503 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 398527007504 catalytic residues [active] 398527007505 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398527007506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527007507 NAD(P) binding site [chemical binding]; other site 398527007508 active site 398527007509 Helix-turn-helix domains; Region: HTH; cl00088 398527007510 glutathione S-transferase; Provisional; Region: PRK15113 398527007511 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 398527007512 C-terminal domain interface [polypeptide binding]; other site 398527007513 GSH binding site (G-site) [chemical binding]; other site 398527007514 dimer interface [polypeptide binding]; other site 398527007515 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 398527007516 putative substrate binding pocket (H-site) [chemical binding]; other site 398527007517 N-terminal domain interface [polypeptide binding]; other site 398527007518 Carboxylesterase family; Region: COesterase; pfam00135 398527007519 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527007520 substrate binding pocket [chemical binding]; other site 398527007521 catalytic triad [active] 398527007522 Uncharacterized conserved protein [Function unknown]; Region: COG5361 398527007523 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 398527007524 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 398527007525 Uncharacterized conserved protein [Function unknown]; Region: COG5361 398527007526 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 398527007527 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 398527007528 H-NS histone family; Region: Histone_HNS; pfam00816 398527007529 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527007530 Helix-turn-helix domain; Region: HTH_18; pfam12833 398527007531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527007532 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 398527007533 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 398527007534 Uncharacterized conserved protein [Function unknown]; Region: COG5361 398527007535 Response regulator receiver domain; Region: Response_reg; pfam00072 398527007536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527007537 active site 398527007538 phosphorylation site [posttranslational modification] 398527007539 intermolecular recognition site; other site 398527007540 dimerization interface [polypeptide binding]; other site 398527007541 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398527007542 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527007543 active site 398527007544 phosphorylation site [posttranslational modification] 398527007545 intermolecular recognition site; other site 398527007546 dimerization interface [polypeptide binding]; other site 398527007547 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527007548 DNA binding residues [nucleotide binding] 398527007549 dimerization interface [polypeptide binding]; other site 398527007550 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398527007551 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527007552 dimer interface [polypeptide binding]; other site 398527007553 phosphorylation site [posttranslational modification] 398527007554 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527007555 ATP binding site [chemical binding]; other site 398527007556 Mg2+ binding site [ion binding]; other site 398527007557 G-X-G motif; other site 398527007558 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398527007559 Sulfatase; Region: Sulfatase; cl10460 398527007560 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527007561 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 398527007562 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527007563 FeS/SAM binding site; other site 398527007564 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 398527007565 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398527007566 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 398527007567 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527007568 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398527007569 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398527007570 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 398527007571 active site residue [active] 398527007572 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398527007573 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527007574 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398527007575 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398527007576 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527007577 ligand binding site [chemical binding]; other site 398527007578 flexible hinge region; other site 398527007579 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398527007580 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527007581 DNA binding site [nucleotide binding] 398527007582 Predicted ATPase [General function prediction only]; Region: COG3903 398527007583 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007584 transcriptional regulator; Provisional; Region: PRK10632 398527007585 Helix-turn-helix domains; Region: HTH; cl00088 398527007586 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527007587 putative effector binding pocket; other site 398527007588 dimerization interface [polypeptide binding]; other site 398527007589 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527007590 classical (c) SDRs; Region: SDR_c; cd05233 398527007591 NAD(P) binding site [chemical binding]; other site 398527007592 active site 398527007593 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398527007594 substrate binding site [chemical binding]; other site 398527007595 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527007596 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 398527007597 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527007598 Cupin domain; Region: Cupin_2; cl09118 398527007599 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527007600 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398527007601 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527007602 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398527007603 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527007604 S-adenosylmethionine binding site [chemical binding]; other site 398527007605 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527007606 S-adenosylmethionine binding site [chemical binding]; other site 398527007607 Nucleotide-diphospho-sugar transferase; Region: Nucleotid_trans; cl05288 398527007608 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527007609 OpgC protein; Region: OpgC_C; cl00792 398527007610 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398527007611 ABC-2 type transporter; Region: ABC2_membrane; cl11417 398527007612 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 398527007613 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 398527007614 Walker A/P-loop; other site 398527007615 ATP binding site [chemical binding]; other site 398527007616 Q-loop/lid; other site 398527007617 ABC transporter signature motif; other site 398527007618 Walker B; other site 398527007619 D-loop; other site 398527007620 H-loop/switch region; other site 398527007621 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 398527007622 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527007623 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527007624 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398527007625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527007626 NAD(P) binding site [chemical binding]; other site 398527007627 active site 398527007628 amino acid transporter; Region: 2A0306; TIGR00909 398527007629 Spore germination protein; Region: Spore_permease; cl15802 398527007630 K+ potassium transporter; Region: K_trans; cl15781 398527007631 hypothetical protein; Provisional; Region: PRK11469 398527007632 Domain of unknown function DUF; Region: DUF204; pfam02659 398527007633 Domain of unknown function DUF; Region: DUF204; pfam02659 398527007634 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 398527007635 CHASE domain; Region: CHASE; cl01369 398527007636 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527007637 PAS domain; Region: PAS_9; pfam13426 398527007638 putative active site [active] 398527007639 heme pocket [chemical binding]; other site 398527007640 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527007641 PAS domain; Region: PAS_9; pfam13426 398527007642 putative active site [active] 398527007643 heme pocket [chemical binding]; other site 398527007644 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527007645 metal binding site [ion binding]; metal-binding site 398527007646 active site 398527007647 I-site; other site 398527007648 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527007649 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527007650 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527007651 substrate binding pocket [chemical binding]; other site 398527007652 membrane-bound complex binding site; other site 398527007653 hinge residues; other site 398527007654 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527007655 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 398527007656 putative heme binding pocket [chemical binding]; other site 398527007657 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398527007658 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398527007659 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527007660 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 398527007661 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398527007662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527007663 dimer interface [polypeptide binding]; other site 398527007664 conserved gate region; other site 398527007665 putative PBP binding loops; other site 398527007666 ABC-ATPase subunit interface; other site 398527007667 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527007668 dimer interface [polypeptide binding]; other site 398527007669 conserved gate region; other site 398527007670 putative PBP binding loops; other site 398527007671 ABC-ATPase subunit interface; other site 398527007672 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 398527007673 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 398527007674 Walker A/P-loop; other site 398527007675 ATP binding site [chemical binding]; other site 398527007676 Q-loop/lid; other site 398527007677 ABC transporter signature motif; other site 398527007678 Walker B; other site 398527007679 D-loop; other site 398527007680 H-loop/switch region; other site 398527007681 TOBE domain; Region: TOBE_2; cl01440 398527007682 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 398527007683 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 398527007684 Walker A/P-loop; other site 398527007685 ATP binding site [chemical binding]; other site 398527007686 Q-loop/lid; other site 398527007687 ABC transporter signature motif; other site 398527007688 Walker B; other site 398527007689 D-loop; other site 398527007690 H-loop/switch region; other site 398527007691 TOBE domain; Region: TOBE_2; cl01440 398527007692 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 398527007693 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527007694 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527007695 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527007696 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527007697 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 398527007698 putative N-terminal domain interface [polypeptide binding]; other site 398527007699 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 398527007700 active site 398527007701 catalytic triad [active] 398527007702 oxyanion hole [active] 398527007703 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398527007704 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 398527007705 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398527007706 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398527007707 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 398527007708 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527007709 putative substrate translocation pore; other site 398527007710 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 398527007711 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527007712 PYR/PP interface [polypeptide binding]; other site 398527007713 dimer interface [polypeptide binding]; other site 398527007714 TPP binding site [chemical binding]; other site 398527007715 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527007716 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 398527007717 TPP-binding site; other site 398527007718 dimer interface [polypeptide binding]; other site 398527007719 formyl-coenzyme A transferase; Provisional; Region: PRK05398 398527007720 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527007721 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527007722 PAS fold; Region: PAS_3; pfam08447 398527007723 putative active site [active] 398527007724 heme pocket [chemical binding]; other site 398527007725 Helix-turn-helix domains; Region: HTH; cl00088 398527007726 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527007727 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 398527007728 putative effector binding pocket; other site 398527007729 putative dimerization interface [polypeptide binding]; other site 398527007730 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 398527007731 FMN binding site [chemical binding]; other site 398527007732 substrate binding site [chemical binding]; other site 398527007733 putative catalytic residue [active] 398527007734 drug efflux system protein MdtG; Provisional; Region: PRK09874 398527007735 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527007736 putative substrate translocation pore; other site 398527007737 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527007738 CHAD domain; Region: CHAD; cl10506 398527007739 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 398527007740 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 398527007741 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527007742 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 398527007743 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527007744 non-specific DNA binding site [nucleotide binding]; other site 398527007745 salt bridge; other site 398527007746 sequence-specific DNA binding site [nucleotide binding]; other site 398527007747 Cupin domain; Region: Cupin_2; cl09118 398527007748 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398527007749 FAD binding domain; Region: FAD_binding_4; pfam01565 398527007750 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398527007751 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 398527007752 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527007753 Helix-turn-helix domains; Region: HTH; cl00088 398527007754 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527007755 dimerization interface [polypeptide binding]; other site 398527007756 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 398527007757 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 398527007758 dimer interface [polypeptide binding]; other site 398527007759 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 398527007760 active site 398527007761 Fe binding site [ion binding]; other site 398527007762 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398527007763 Helix-turn-helix domains; Region: HTH; cl00088 398527007764 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 398527007765 putative dimerization interface [polypeptide binding]; other site 398527007766 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 398527007767 heterodimer interface [polypeptide binding]; other site 398527007768 multimer interface [polypeptide binding]; other site 398527007769 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 398527007770 active site 398527007771 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 398527007772 heterodimer interface [polypeptide binding]; other site 398527007773 active site 398527007774 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 398527007775 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527007776 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527007777 LysE type translocator; Region: LysE; cl00565 398527007778 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 398527007779 DNA-binding site [nucleotide binding]; DNA binding site 398527007780 RNA-binding motif; other site 398527007781 acyl-CoA synthetase; Validated; Region: PRK08162 398527007782 AMP-binding enzyme; Region: AMP-binding; cl15778 398527007783 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527007784 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398527007785 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527007786 ligand binding site [chemical binding]; other site 398527007787 flexible hinge region; other site 398527007788 Helix-turn-helix domains; Region: HTH; cl00088 398527007789 Cache domain; Region: Cache_2; cl07034 398527007790 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527007791 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527007792 dimer interface [polypeptide binding]; other site 398527007793 putative CheW interface [polypeptide binding]; other site 398527007794 DDE superfamily endonuclease; Region: DDE_4; cl15789 398527007795 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527007796 trimer interface [polypeptide binding]; other site 398527007797 eyelet of channel; other site 398527007798 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527007799 eyelet of channel; other site 398527007800 trimer interface [polypeptide binding]; other site 398527007801 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 398527007802 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 398527007803 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398527007804 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 398527007805 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527007806 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398527007807 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527007808 DNA binding residues [nucleotide binding] 398527007809 DNA primase; Validated; Region: dnaG; PRK05667 398527007810 CHC2 zinc finger; Region: zf-CHC2; cl15369 398527007811 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 398527007812 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 398527007813 active site 398527007814 metal binding site [ion binding]; metal-binding site 398527007815 interdomain interaction site; other site 398527007816 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 398527007817 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 398527007818 GatB domain; Region: GatB_Yqey; cl11497 398527007819 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 398527007820 HI0933-like protein; Region: HI0933_like; pfam03486 398527007821 UGMP family protein; Validated; Region: PRK09604 398527007822 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 398527007823 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 398527007824 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 398527007825 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 398527007826 TPP-binding site; other site 398527007827 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 398527007828 PYR/PP interface [polypeptide binding]; other site 398527007829 dimer interface [polypeptide binding]; other site 398527007830 TPP binding site [chemical binding]; other site 398527007831 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398527007832 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398527007833 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398527007834 substrate binding pocket [chemical binding]; other site 398527007835 chain length determination region; other site 398527007836 substrate-Mg2+ binding site; other site 398527007837 catalytic residues [active] 398527007838 aspartate-rich region 1; other site 398527007839 active site lid residues [active] 398527007840 aspartate-rich region 2; other site 398527007841 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 398527007842 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398527007843 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 398527007844 [2Fe-2S] cluster binding site [ion binding]; other site 398527007845 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 398527007846 alpha subunit interface [polypeptide binding]; other site 398527007847 active site 398527007848 substrate binding site [chemical binding]; other site 398527007849 Fe binding site [ion binding]; other site 398527007850 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 398527007851 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 398527007852 active site residue [active] 398527007853 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 398527007854 active site residue [active] 398527007855 Dienelactone hydrolase family; Region: DLH; pfam01738 398527007856 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398527007857 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527007858 DNA polymerase I; Provisional; Region: PRK05755 398527007859 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 398527007860 active site 398527007861 metal binding site 1 [ion binding]; metal-binding site 398527007862 putative 5' ssDNA interaction site; other site 398527007863 metal binding site 3; metal-binding site 398527007864 metal binding site 2 [ion binding]; metal-binding site 398527007865 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 398527007866 putative DNA binding site [nucleotide binding]; other site 398527007867 putative metal binding site [ion binding]; other site 398527007868 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 398527007869 active site 398527007870 catalytic site [active] 398527007871 substrate binding site [chemical binding]; other site 398527007872 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 398527007873 active site 398527007874 DNA binding site [nucleotide binding] 398527007875 catalytic site [active] 398527007876 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 398527007877 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527007878 Helix-turn-helix domains; Region: HTH; cl00088 398527007879 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527007880 dimerization interface [polypeptide binding]; other site 398527007881 substrate binding pocket [chemical binding]; other site 398527007882 Chromate transporter; Region: Chromate_transp; pfam02417 398527007883 Chromate transporter; Region: Chromate_transp; pfam02417 398527007884 AMP nucleosidase; Provisional; Region: PRK08292 398527007885 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 398527007886 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 398527007887 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 398527007888 putative active site [active] 398527007889 putative substrate binding site [chemical binding]; other site 398527007890 ATP binding site [chemical binding]; other site 398527007891 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 398527007892 Helix-turn-helix domains; Region: HTH; cl00088 398527007893 OsmC-like protein; Region: OsmC; cl00767 398527007894 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 398527007895 DNA photolyase; Region: DNA_photolyase; pfam00875 398527007896 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 398527007897 TspO/MBR family; Region: TspO_MBR; cl01379 398527007898 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 398527007899 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 398527007900 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527007901 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 398527007902 active site 398527007903 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398527007904 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527007905 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527007906 dimer interface [polypeptide binding]; other site 398527007907 conserved gate region; other site 398527007908 putative PBP binding loops; other site 398527007909 ABC-ATPase subunit interface; other site 398527007910 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398527007911 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527007912 Walker A/P-loop; other site 398527007913 ATP binding site [chemical binding]; other site 398527007914 Q-loop/lid; other site 398527007915 ABC transporter signature motif; other site 398527007916 Walker B; other site 398527007917 D-loop; other site 398527007918 H-loop/switch region; other site 398527007919 Helix-turn-helix domains; Region: HTH; cl00088 398527007920 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 398527007921 TOBE domain; Region: TOBE_2; cl01440 398527007922 TOBE domain; Region: TOBE_2; cl01440 398527007923 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527007924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527007925 NAD(P) binding site [chemical binding]; other site 398527007926 active site 398527007927 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527007928 trimer interface [polypeptide binding]; other site 398527007929 eyelet of channel; other site 398527007930 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527007931 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527007932 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398527007933 Helix-turn-helix domains; Region: HTH; cl00088 398527007934 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527007935 dimerization interface [polypeptide binding]; other site 398527007936 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 398527007937 RES domain; Region: RES; cl02411 398527007938 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398527007939 active site 398527007940 metal binding site [ion binding]; metal-binding site 398527007941 Cytochrome c; Region: Cytochrom_C; cl11414 398527007942 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398527007943 Cytochrome c; Region: Cytochrom_C; cl11414 398527007944 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398527007945 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527007946 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 398527007947 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 398527007948 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 398527007949 active site 398527007950 catalytic site [active] 398527007951 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 398527007952 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 398527007953 active site 398527007954 homodimer interface [polypeptide binding]; other site 398527007955 catalytic site [active] 398527007956 acceptor binding site [chemical binding]; other site 398527007957 trehalose synthase; Region: treS_nterm; TIGR02456 398527007958 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 398527007959 active site 398527007960 catalytic site [active] 398527007961 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 398527007962 glycogen branching enzyme; Provisional; Region: PRK05402 398527007963 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 398527007964 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 398527007965 active site 398527007966 catalytic site [active] 398527007967 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 398527007968 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 398527007969 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 398527007970 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 398527007971 active site 398527007972 catalytic site [active] 398527007973 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 398527007974 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 398527007975 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 398527007976 catalytic site [active] 398527007977 active site 398527007978 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 398527007979 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 398527007980 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 398527007981 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 398527007982 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 398527007983 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 398527007984 active site 398527007985 catalytic site [active] 398527007986 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 398527007987 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 398527007988 Domain of unknown function DUF21; Region: DUF21; pfam01595 398527007989 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 398527007990 Transporter associated domain; Region: CorC_HlyC; cl08393 398527007991 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527007992 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527007993 dimer interface [polypeptide binding]; other site 398527007994 phosphorylation site [posttranslational modification] 398527007995 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 398527007996 Cupin domain; Region: Cupin_2; cl09118 398527007997 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527007998 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527007999 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527008000 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 398527008001 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 398527008002 homodimer interface [polypeptide binding]; other site 398527008003 substrate-cofactor binding pocket; other site 398527008004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527008005 catalytic residue [active] 398527008006 amidophosphoribosyltransferase; Provisional; Region: PRK09246 398527008007 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 398527008008 active site 398527008009 tetramer interface [polypeptide binding]; other site 398527008010 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398527008011 active site 398527008012 Colicin V production protein; Region: Colicin_V; cl00567 398527008013 Sporulation related domain; Region: SPOR; cl10051 398527008014 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 398527008015 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398527008016 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398527008017 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 398527008018 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 398527008019 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 398527008020 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 398527008021 substrate binding site [chemical binding]; other site 398527008022 active site 398527008023 catalytic residues [active] 398527008024 heterodimer interface [polypeptide binding]; other site 398527008025 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527008026 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 398527008027 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 398527008028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527008029 catalytic residue [active] 398527008030 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 398527008031 active site 398527008032 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 398527008033 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 398527008034 dimerization interface 3.5A [polypeptide binding]; other site 398527008035 active site 398527008036 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 398527008037 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 398527008038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527008039 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 398527008040 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 398527008041 tartrate dehydrogenase; Provisional; Region: PRK08194 398527008042 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 398527008043 substrate binding site [chemical binding]; other site 398527008044 Entericidin EcnA/B family; Region: Entericidin; cl02322 398527008045 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 398527008046 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 398527008047 substrate binding site [chemical binding]; other site 398527008048 ligand binding site [chemical binding]; other site 398527008049 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 398527008050 dimer interface [polypeptide binding]; other site 398527008051 Citrate synthase; Region: Citrate_synt; pfam00285 398527008052 active site 398527008053 citrylCoA binding site [chemical binding]; other site 398527008054 NADH binding [chemical binding]; other site 398527008055 cationic pore residues; other site 398527008056 oxalacetate/citrate binding site [chemical binding]; other site 398527008057 coenzyme A binding site [chemical binding]; other site 398527008058 catalytic triad [active] 398527008059 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 398527008060 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 398527008061 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527008062 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 398527008063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527008064 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398527008065 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 398527008066 SdhC subunit interface [polypeptide binding]; other site 398527008067 proximal heme binding site [chemical binding]; other site 398527008068 cardiolipin binding site; other site 398527008069 Iron-sulfur protein interface; other site 398527008070 proximal quinone binding site [chemical binding]; other site 398527008071 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 398527008072 Iron-sulfur protein interface; other site 398527008073 proximal quinone binding site [chemical binding]; other site 398527008074 SdhD (CybS) interface [polypeptide binding]; other site 398527008075 proximal heme binding site [chemical binding]; other site 398527008076 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398527008077 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527008078 DNA-binding site [nucleotide binding]; DNA binding site 398527008079 UTRA domain; Region: UTRA; cl01230 398527008080 malate dehydrogenase; Provisional; Region: PRK05442 398527008081 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 398527008082 NAD(P) binding site [chemical binding]; other site 398527008083 dimer interface [polypeptide binding]; other site 398527008084 malate binding site [chemical binding]; other site 398527008085 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 398527008086 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 398527008087 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 398527008088 dimer interface [polypeptide binding]; other site 398527008089 active site 398527008090 citrylCoA binding site [chemical binding]; other site 398527008091 oxalacetate/citrate binding site [chemical binding]; other site 398527008092 coenzyme A binding site [chemical binding]; other site 398527008093 catalytic triad [active] 398527008094 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 398527008095 aconitate hydratase; Provisional; Region: acnA; PRK12881 398527008096 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 398527008097 substrate binding site [chemical binding]; other site 398527008098 ligand binding site [chemical binding]; other site 398527008099 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 398527008100 substrate binding site [chemical binding]; other site 398527008101 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527008102 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008103 active site 398527008104 phosphorylation site [posttranslational modification] 398527008105 intermolecular recognition site; other site 398527008106 dimerization interface [polypeptide binding]; other site 398527008107 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527008108 DNA binding residues [nucleotide binding] 398527008109 dimerization interface [polypeptide binding]; other site 398527008110 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527008111 ligand binding site [chemical binding]; other site 398527008112 Haemagglutinin; Region: HIM; pfam05662 398527008113 Haemagglutinin; Region: HIM; pfam05662 398527008114 Haemagglutinin; Region: HIM; pfam05662 398527008115 Haemagglutinin; Region: HIM; pfam05662 398527008116 Haemagglutinin; Region: HIM; pfam05662 398527008117 Haemagglutinin; Region: HIM; pfam05662 398527008118 YadA-like C-terminal region; Region: YadA; pfam03895 398527008119 TadE-like protein; Region: TadE; cl10688 398527008120 acyl-CoA synthetase; Validated; Region: PRK08162 398527008121 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 398527008122 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 398527008123 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398527008124 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 398527008125 phosphopeptide binding site; other site 398527008126 Type II/IV secretion system protein; Region: T2SE; pfam00437 398527008127 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 398527008128 ATP binding site [chemical binding]; other site 398527008129 Walker A motif; other site 398527008130 hexamer interface [polypeptide binding]; other site 398527008131 Walker B motif; other site 398527008132 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 398527008133 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 398527008134 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 398527008135 TadE-like protein; Region: TadE; cl10688 398527008136 putative lysin; Region: PHA00658 398527008137 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527008138 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527008139 catalytic residue [active] 398527008140 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 398527008141 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527008142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008143 active site 398527008144 phosphorylation site [posttranslational modification] 398527008145 intermolecular recognition site; other site 398527008146 dimerization interface [polypeptide binding]; other site 398527008147 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527008148 DNA binding residues [nucleotide binding] 398527008149 dimerization interface [polypeptide binding]; other site 398527008150 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527008151 ligand binding site [chemical binding]; other site 398527008152 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527008153 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527008154 dimer interface [polypeptide binding]; other site 398527008155 conserved gate region; other site 398527008156 putative PBP binding loops; other site 398527008157 ABC-ATPase subunit interface; other site 398527008158 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527008159 dimer interface [polypeptide binding]; other site 398527008160 conserved gate region; other site 398527008161 putative PBP binding loops; other site 398527008162 ABC-ATPase subunit interface; other site 398527008163 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 398527008164 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527008165 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527008166 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 398527008167 Walker A/P-loop; other site 398527008168 ATP binding site [chemical binding]; other site 398527008169 Q-loop/lid; other site 398527008170 ABC transporter signature motif; other site 398527008171 Walker B; other site 398527008172 D-loop; other site 398527008173 H-loop/switch region; other site 398527008174 TOBE domain; Region: TOBE_2; cl01440 398527008175 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527008176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527008177 DNA-binding site [nucleotide binding]; DNA binding site 398527008178 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527008179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527008180 homodimer interface [polypeptide binding]; other site 398527008181 catalytic residue [active] 398527008182 AsmA family; Region: AsmA; pfam05170 398527008183 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398527008184 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398527008185 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398527008186 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398527008187 Uncharacterized conserved protein [Function unknown]; Region: COG5361 398527008188 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 398527008189 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 398527008190 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398527008191 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 398527008192 metal-binding site [ion binding] 398527008193 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398527008194 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 398527008195 metal-binding site [ion binding] 398527008196 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398527008197 Cache domain; Region: Cache_1; pfam02743 398527008198 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527008199 dimerization interface [polypeptide binding]; other site 398527008200 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527008201 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527008202 dimer interface [polypeptide binding]; other site 398527008203 putative CheW interface [polypeptide binding]; other site 398527008204 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 398527008205 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527008206 putative C-terminal domain interface [polypeptide binding]; other site 398527008207 putative GSH binding site (G-site) [chemical binding]; other site 398527008208 putative dimer interface [polypeptide binding]; other site 398527008209 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 398527008210 putative N-terminal domain interface [polypeptide binding]; other site 398527008211 putative dimer interface [polypeptide binding]; other site 398527008212 putative substrate binding pocket (H-site) [chemical binding]; other site 398527008213 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 398527008214 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 398527008215 Cupin domain; Region: Cupin_2; cl09118 398527008216 Flavin Reductases; Region: FlaRed; cl00801 398527008217 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 398527008218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527008219 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398527008220 MgtC family; Region: MgtC; pfam02308 398527008221 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 398527008222 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 398527008223 dimerization interface [polypeptide binding]; other site 398527008224 putative active cleft [active] 398527008225 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 398527008226 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 398527008227 DNA-binding site [nucleotide binding]; DNA binding site 398527008228 RNA-binding motif; other site 398527008229 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 398527008230 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 398527008231 dimer interface [polypeptide binding]; other site 398527008232 ligand binding site [chemical binding]; other site 398527008233 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527008234 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527008235 dimer interface [polypeptide binding]; other site 398527008236 putative CheW interface [polypeptide binding]; other site 398527008237 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398527008238 CoenzymeA binding site [chemical binding]; other site 398527008239 subunit interaction site [polypeptide binding]; other site 398527008240 PHB binding site; other site 398527008241 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527008242 dimerization interface [polypeptide binding]; other site 398527008243 putative DNA binding site [nucleotide binding]; other site 398527008244 putative Zn2+ binding site [ion binding]; other site 398527008245 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 398527008246 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527008247 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527008248 catalytic residue [active] 398527008249 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 398527008250 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527008251 short chain dehydrogenase; Provisional; Region: PRK06138 398527008252 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 398527008253 NAD binding site [chemical binding]; other site 398527008254 homotetramer interface [polypeptide binding]; other site 398527008255 homodimer interface [polypeptide binding]; other site 398527008256 active site 398527008257 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398527008258 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527008259 active site 398527008260 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527008261 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527008262 active site 398527008263 catalytic tetrad [active] 398527008264 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 398527008265 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 398527008266 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 398527008267 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527008268 TM-ABC transporter signature motif; other site 398527008269 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527008270 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527008271 Walker A/P-loop; other site 398527008272 ATP binding site [chemical binding]; other site 398527008273 Q-loop/lid; other site 398527008274 ABC transporter signature motif; other site 398527008275 Walker B; other site 398527008276 D-loop; other site 398527008277 H-loop/switch region; other site 398527008278 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527008279 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 398527008280 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527008281 ligand binding site [chemical binding]; other site 398527008282 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527008283 Helix-turn-helix domains; Region: HTH; cl00088 398527008284 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527008285 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 398527008286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527008287 CoA-ligase; Region: Ligase_CoA; cl02894 398527008288 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398527008289 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527008290 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527008291 Helix-turn-helix domains; Region: HTH; cl00088 398527008292 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527008293 dimerization interface [polypeptide binding]; other site 398527008294 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 398527008295 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 398527008296 G1 box; other site 398527008297 putative GEF interaction site [polypeptide binding]; other site 398527008298 GTP/Mg2+ binding site [chemical binding]; other site 398527008299 Switch I region; other site 398527008300 G2 box; other site 398527008301 G3 box; other site 398527008302 Switch II region; other site 398527008303 G4 box; other site 398527008304 G5 box; other site 398527008305 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 398527008306 Fimbrial protein; Region: Fimbrial; cl01416 398527008307 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398527008308 PapC N-terminal domain; Region: PapC_N; pfam13954 398527008309 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398527008310 PapC C-terminal domain; Region: PapC_C; pfam13953 398527008311 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398527008312 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 398527008313 Fimbrial protein; Region: Fimbrial; cl01416 398527008314 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527008315 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 398527008316 putative substrate translocation pore; other site 398527008317 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527008318 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398527008319 tetramerization interface [polypeptide binding]; other site 398527008320 NAD(P) binding site [chemical binding]; other site 398527008321 catalytic residues [active] 398527008322 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527008323 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527008324 active site 398527008325 catalytic tetrad [active] 398527008326 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 398527008327 H-NS histone family; Region: Histone_HNS; pfam00816 398527008328 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527008329 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527008330 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 398527008331 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527008332 Walker A motif; other site 398527008333 ATP binding site [chemical binding]; other site 398527008334 Walker B motif; other site 398527008335 Helix-turn-helix domains; Region: HTH; cl00088 398527008336 Citrate transporter; Region: CitMHS; pfam03600 398527008337 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 398527008338 homotrimer interaction site [polypeptide binding]; other site 398527008339 putative active site [active] 398527008340 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 398527008341 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527008342 dimer interface [polypeptide binding]; other site 398527008343 phosphorylation site [posttranslational modification] 398527008344 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527008345 ATP binding site [chemical binding]; other site 398527008346 Mg2+ binding site [ion binding]; other site 398527008347 G-X-G motif; other site 398527008348 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 398527008349 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008350 active site 398527008351 phosphorylation site [posttranslational modification] 398527008352 intermolecular recognition site; other site 398527008353 dimerization interface [polypeptide binding]; other site 398527008354 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527008355 PAS domain; Region: PAS_9; pfam13426 398527008356 putative active site [active] 398527008357 heme pocket [chemical binding]; other site 398527008358 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527008359 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527008360 dimer interface [polypeptide binding]; other site 398527008361 putative CheW interface [polypeptide binding]; other site 398527008362 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 398527008363 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398527008364 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 398527008365 active site residue [active] 398527008366 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527008367 ligand binding site [chemical binding]; other site 398527008368 flexible hinge region; other site 398527008369 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 398527008370 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 398527008371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527008372 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527008373 LysE type translocator; Region: LysE; cl00565 398527008374 Uncharacterized conserved protein [Function unknown]; Region: COG3391 398527008375 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 398527008376 EamA-like transporter family; Region: EamA; cl01037 398527008377 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527008378 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527008379 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398527008380 FAD binding domain; Region: FAD_binding_4; pfam01565 398527008381 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 398527008382 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 398527008383 Cysteine-rich domain; Region: CCG; pfam02754 398527008384 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527008385 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527008386 D-galactonate transporter; Region: 2A0114; TIGR00893 398527008387 putative substrate translocation pore; other site 398527008388 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 398527008389 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 398527008390 homodimer interface [polypeptide binding]; other site 398527008391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527008392 catalytic residue [active] 398527008393 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527008394 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527008395 DNA-binding site [nucleotide binding]; DNA binding site 398527008396 FCD domain; Region: FCD; cl11656 398527008397 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 398527008398 Helix-turn-helix domains; Region: HTH; cl00088 398527008399 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527008400 dimerization interface [polypeptide binding]; other site 398527008401 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398527008402 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 398527008403 Walker A/P-loop; other site 398527008404 ATP binding site [chemical binding]; other site 398527008405 Q-loop/lid; other site 398527008406 ABC transporter signature motif; other site 398527008407 Walker B; other site 398527008408 D-loop; other site 398527008409 H-loop/switch region; other site 398527008410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527008411 dimer interface [polypeptide binding]; other site 398527008412 conserved gate region; other site 398527008413 putative PBP binding loops; other site 398527008414 ABC-ATPase subunit interface; other site 398527008415 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527008416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527008417 dimer interface [polypeptide binding]; other site 398527008418 conserved gate region; other site 398527008419 putative PBP binding loops; other site 398527008420 ABC-ATPase subunit interface; other site 398527008421 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 398527008422 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527008423 substrate binding pocket [chemical binding]; other site 398527008424 membrane-bound complex binding site; other site 398527008425 hinge residues; other site 398527008426 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398527008427 Helix-turn-helix domains; Region: HTH; cl00088 398527008428 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 398527008429 putative dimerization interface [polypeptide binding]; other site 398527008430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527008431 metal binding site [ion binding]; metal-binding site 398527008432 active site 398527008433 I-site; other site 398527008434 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527008435 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 398527008436 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 398527008437 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527008438 D-galactonate transporter; Region: 2A0114; TIGR00893 398527008439 putative substrate translocation pore; other site 398527008440 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398527008441 active site 398527008442 catalytic residues [active] 398527008443 metal binding site [ion binding]; metal-binding site 398527008444 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527008445 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527008446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527008447 Helix-turn-helix domains; Region: HTH; cl00088 398527008448 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 398527008449 putative dimerization interface [polypeptide binding]; other site 398527008450 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527008451 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398527008452 conserved cys residue [active] 398527008453 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527008454 short chain dehydrogenase; Provisional; Region: PRK07023 398527008455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527008456 NAD(P) binding site [chemical binding]; other site 398527008457 active site 398527008458 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398527008459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008460 active site 398527008461 phosphorylation site [posttranslational modification] 398527008462 intermolecular recognition site; other site 398527008463 dimerization interface [polypeptide binding]; other site 398527008464 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527008465 DNA binding site [nucleotide binding] 398527008466 Response regulator receiver domain; Region: Response_reg; pfam00072 398527008467 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008468 active site 398527008469 phosphorylation site [posttranslational modification] 398527008470 intermolecular recognition site; other site 398527008471 dimerization interface [polypeptide binding]; other site 398527008472 Chemotaxis phosphatase CheX; Region: CheX; cl15816 398527008473 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 398527008474 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398527008475 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 398527008476 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527008477 dimerization interface [polypeptide binding]; other site 398527008478 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 398527008479 putative binding surface; other site 398527008480 active site 398527008481 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527008482 ATP binding site [chemical binding]; other site 398527008483 Mg2+ binding site [ion binding]; other site 398527008484 G-X-G motif; other site 398527008485 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398527008486 putative active site [active] 398527008487 catalytic site [active] 398527008488 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 398527008489 putative active site [active] 398527008490 catalytic site [active] 398527008491 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 398527008492 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 398527008493 active site 398527008494 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 398527008495 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 398527008496 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398527008497 Protein export membrane protein; Region: SecD_SecF; cl14618 398527008498 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 398527008499 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527008500 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527008501 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398527008502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008503 active site 398527008504 phosphorylation site [posttranslational modification] 398527008505 intermolecular recognition site; other site 398527008506 dimerization interface [polypeptide binding]; other site 398527008507 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527008508 DNA binding site [nucleotide binding] 398527008509 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527008510 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 398527008511 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527008512 dimer interface [polypeptide binding]; other site 398527008513 phosphorylation site [posttranslational modification] 398527008514 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527008515 ATP binding site [chemical binding]; other site 398527008516 Mg2+ binding site [ion binding]; other site 398527008517 G-X-G motif; other site 398527008518 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 398527008519 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 398527008520 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527008521 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527008522 Helix-turn-helix domains; Region: HTH; cl00088 398527008523 YceI-like domain; Region: YceI; cl01001 398527008524 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 398527008525 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398527008526 NAD(P) binding site [chemical binding]; other site 398527008527 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 398527008528 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 398527008529 substrate-cofactor binding pocket; other site 398527008530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527008531 catalytic residue [active] 398527008532 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527008533 non-specific DNA binding site [nucleotide binding]; other site 398527008534 salt bridge; other site 398527008535 sequence-specific DNA binding site [nucleotide binding]; other site 398527008536 Cupin domain; Region: Cupin_2; cl09118 398527008537 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 398527008538 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 398527008539 active site 398527008540 catalytic residues [active] 398527008541 Int/Topo IB signature motif; other site 398527008542 DNA binding site [nucleotide binding] 398527008543 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 398527008544 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 398527008545 Initiator Replication protein; Region: Rep_3; cl03080 398527008546 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 398527008547 ParB-like nuclease domain; Region: ParBc; cl02129 398527008548 ParA-like protein; Provisional; Region: PHA02518 398527008549 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 398527008550 P-loop; other site 398527008551 Magnesium ion binding site [ion binding]; other site 398527008552 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 398527008553 ArsC family; Region: ArsC; pfam03960 398527008554 catalytic residues [active] 398527008555 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398527008556 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527008557 substrate binding pocket [chemical binding]; other site 398527008558 membrane-bound complex binding site; other site 398527008559 hinge residues; other site 398527008560 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 398527008561 GntP family permease; Region: GntP_permease; pfam02447 398527008562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 398527008563 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 398527008564 Putative zinc-finger; Region: zf-HC2; cl15806 398527008565 RNA polymerase sigma factor; Provisional; Region: PRK12545 398527008566 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527008567 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527008568 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398527008569 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527008570 ATP binding site [chemical binding]; other site 398527008571 Mg2+ binding site [ion binding]; other site 398527008572 G-X-G motif; other site 398527008573 Response regulator receiver domain; Region: Response_reg; pfam00072 398527008574 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008575 active site 398527008576 phosphorylation site [posttranslational modification] 398527008577 intermolecular recognition site; other site 398527008578 dimerization interface [polypeptide binding]; other site 398527008579 Response regulator receiver domain; Region: Response_reg; pfam00072 398527008580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008581 active site 398527008582 phosphorylation site [posttranslational modification] 398527008583 intermolecular recognition site; other site 398527008584 dimerization interface [polypeptide binding]; other site 398527008585 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 398527008586 Chemotaxis phosphatase CheX; Region: CheX; cl15816 398527008587 PAS fold; Region: PAS; pfam00989 398527008588 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527008589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527008590 metal binding site [ion binding]; metal-binding site 398527008591 active site 398527008592 I-site; other site 398527008593 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 398527008594 active site lid residues [active] 398527008595 substrate binding pocket [chemical binding]; other site 398527008596 catalytic residues [active] 398527008597 substrate-Mg2+ binding site; other site 398527008598 aspartate-rich region 1; other site 398527008599 aspartate-rich region 2; other site 398527008600 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 398527008601 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 398527008602 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 398527008603 Active site cavity [active] 398527008604 catalytic acid [active] 398527008605 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 398527008606 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 398527008607 VacJ like lipoprotein; Region: VacJ; cl01073 398527008608 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 398527008609 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 398527008610 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 398527008611 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527008612 FeS/SAM binding site; other site 398527008613 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 398527008614 LytB protein; Region: LYTB; cl00507 398527008615 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 398527008616 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 398527008617 active site lid residues [active] 398527008618 substrate binding pocket [chemical binding]; other site 398527008619 catalytic residues [active] 398527008620 substrate-Mg2+ binding site; other site 398527008621 aspartate-rich region 1; other site 398527008622 aspartate-rich region 2; other site 398527008623 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 398527008624 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527008625 active site 398527008626 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527008627 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 398527008628 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 398527008629 putative NADP binding site [chemical binding]; other site 398527008630 putative substrate binding site [chemical binding]; other site 398527008631 active site 398527008632 Acylphosphatase; Region: Acylphosphatase; cl00551 398527008633 probable methyltransferase; Region: TIGR03438 398527008634 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527008635 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 398527008636 Predicted permeases [General function prediction only]; Region: RarD; COG2962 398527008637 EamA-like transporter family; Region: EamA; cl01037 398527008638 Protein of unknown function (DUF962); Region: DUF962; cl01879 398527008639 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398527008640 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527008641 ligand binding site [chemical binding]; other site 398527008642 flexible hinge region; other site 398527008643 Helix-turn-helix domains; Region: HTH; cl00088 398527008644 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527008645 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527008646 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 398527008647 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 398527008648 active site 398527008649 substrate binding site [chemical binding]; other site 398527008650 Mg2+ binding site [ion binding]; other site 398527008651 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 398527008652 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 398527008653 Phosphoesterase family; Region: Phosphoesterase; cl15450 398527008654 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 398527008655 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527008656 Helix-turn-helix domains; Region: HTH; cl00088 398527008657 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527008658 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527008659 trimer interface [polypeptide binding]; other site 398527008660 eyelet of channel; other site 398527008661 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 398527008662 [2Fe-2S] cluster binding site [ion binding]; other site 398527008663 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 398527008664 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398527008665 iron-sulfur cluster [ion binding]; other site 398527008666 [2Fe-2S] cluster binding site [ion binding]; other site 398527008667 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398527008668 hydrophobic ligand binding site; other site 398527008669 short chain dehydrogenase; Provisional; Region: PRK12939 398527008670 classical (c) SDRs; Region: SDR_c; cd05233 398527008671 NAD(P) binding site [chemical binding]; other site 398527008672 active site 398527008673 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 398527008674 Cupin domain; Region: Cupin_2; cl09118 398527008675 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527008676 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527008677 Helix-turn-helix domains; Region: HTH; cl00088 398527008678 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527008679 short chain dehydrogenase; Provisional; Region: PRK07062 398527008680 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 398527008681 putative NAD(P) binding site [chemical binding]; other site 398527008682 putative active site [active] 398527008683 hypothetical protein; Provisional; Region: PRK07064 398527008684 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527008685 PYR/PP interface [polypeptide binding]; other site 398527008686 dimer interface [polypeptide binding]; other site 398527008687 TPP binding site [chemical binding]; other site 398527008688 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527008689 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 398527008690 TPP-binding site [chemical binding]; other site 398527008691 L-aspartate dehydrogenase; Provisional; Region: PRK13303 398527008692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527008693 Domain of unknown function DUF108; Region: DUF108; pfam01958 398527008694 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527008695 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 398527008696 NAD(P) binding site [chemical binding]; other site 398527008697 catalytic residues [active] 398527008698 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 398527008699 active site 398527008700 metal binding site [ion binding]; metal-binding site 398527008701 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 398527008702 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527008703 putative active site [active] 398527008704 putative metal binding site [ion binding]; other site 398527008705 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 398527008706 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527008707 benzoate transport; Region: 2A0115; TIGR00895 398527008708 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527008709 putative substrate translocation pore; other site 398527008710 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527008711 RHS Repeat; Region: RHS_repeat; cl11982 398527008712 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398527008713 RHS Repeat; Region: RHS_repeat; cl11982 398527008714 RHS Repeat; Region: RHS_repeat; cl11982 398527008715 RHS Repeat; Region: RHS_repeat; cl11982 398527008716 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398527008717 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 398527008718 HSP70 interaction site [polypeptide binding]; other site 398527008719 RasGAP: Ras-GTPase Activating Domain. RasGAP functions as an enhancer of the hydrolysis of GTP that is bound to Ras-GTPases. Proteins having a RasGAP domain include p120GAP, IQGAP, Rab5-activating protein 6, and Neurofibromin. Although the Rho (Ras...; Region: RasGAP; cl02569 398527008720 Hsp70 protein; Region: HSP70; pfam00012 398527008721 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398527008722 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527008723 Coenzyme A binding pocket [chemical binding]; other site 398527008724 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 398527008725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527008726 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 398527008727 EamA-like transporter family; Region: EamA; cl01037 398527008728 EamA-like transporter family; Region: EamA; cl01037 398527008729 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 398527008730 Phospholipid methyltransferase; Region: PEMT; cl00763 398527008731 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 398527008732 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527008733 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398527008734 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398527008735 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 398527008736 DXD motif; other site 398527008737 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527008738 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398527008739 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 398527008740 [2Fe-2S] cluster binding site [ion binding]; other site 398527008741 Rubredoxin; Region: Rubredoxin; pfam00301 398527008742 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 398527008743 iron binding site [ion binding]; other site 398527008744 short chain dehydrogenase; Provisional; Region: PRK06180 398527008745 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398527008746 NADP binding site [chemical binding]; other site 398527008747 active site 398527008748 steroid binding site; other site 398527008749 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398527008750 Helix-turn-helix domains; Region: HTH; cl00088 398527008751 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527008752 dimerization interface [polypeptide binding]; other site 398527008753 diaminopimelate decarboxylase; Provisional; Region: PRK11165 398527008754 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 398527008755 active site 398527008756 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398527008757 substrate binding site [chemical binding]; other site 398527008758 catalytic residues [active] 398527008759 dimer interface [polypeptide binding]; other site 398527008760 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 398527008761 Helix-turn-helix domains; Region: HTH; cl00088 398527008762 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527008763 dimerization interface [polypeptide binding]; other site 398527008764 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 398527008765 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527008766 substrate binding pocket [chemical binding]; other site 398527008767 membrane-bound complex binding site; other site 398527008768 hinge residues; other site 398527008769 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 398527008770 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 398527008771 active site 398527008772 Zn binding site [ion binding]; other site 398527008773 Cupin domain; Region: Cupin_2; cl09118 398527008774 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 398527008775 Phosphoesterase family; Region: Phosphoesterase; cl15450 398527008776 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398527008777 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398527008778 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 398527008779 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 398527008780 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 398527008781 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 398527008782 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 398527008783 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 398527008784 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 398527008785 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 398527008786 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 398527008787 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398527008788 substrate binding site [chemical binding]; other site 398527008789 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527008790 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527008791 active site 398527008792 catalytic tetrad [active] 398527008793 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 398527008794 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398527008795 N-terminal plug; other site 398527008796 ligand-binding site [chemical binding]; other site 398527008797 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527008798 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 398527008799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 398527008800 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398527008801 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527008802 ATP binding site [chemical binding]; other site 398527008803 Mg2+ binding site [ion binding]; other site 398527008804 G-X-G motif; other site 398527008805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008806 active site 398527008807 phosphorylation site [posttranslational modification] 398527008808 intermolecular recognition site; other site 398527008809 dimerization interface [polypeptide binding]; other site 398527008810 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398527008811 GAF domain; Region: GAF; cl15785 398527008812 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527008813 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398527008814 putative active site [active] 398527008815 heme pocket [chemical binding]; other site 398527008816 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527008817 dimer interface [polypeptide binding]; other site 398527008818 phosphorylation site [posttranslational modification] 398527008819 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527008820 ATP binding site [chemical binding]; other site 398527008821 Mg2+ binding site [ion binding]; other site 398527008822 G-X-G motif; other site 398527008823 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008824 active site 398527008825 phosphorylation site [posttranslational modification] 398527008826 intermolecular recognition site; other site 398527008827 dimerization interface [polypeptide binding]; other site 398527008828 Response regulator receiver domain; Region: Response_reg; pfam00072 398527008829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527008830 active site 398527008831 phosphorylation site [posttranslational modification] 398527008832 intermolecular recognition site; other site 398527008833 dimerization interface [polypeptide binding]; other site 398527008834 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 398527008835 putative FMN binding site [chemical binding]; other site 398527008836 High potential iron-sulfur protein; Region: HIPIP; pfam01355 398527008837 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 398527008838 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398527008839 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527008840 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398527008841 YCII-related domain; Region: YCII; cl00999 398527008842 YCII-related domain; Region: YCII; cl00999 398527008843 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 398527008844 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527008845 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 398527008846 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527008847 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527008848 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527008849 S-adenosylmethionine binding site [chemical binding]; other site 398527008850 LysE type translocator; Region: LysE; cl00565 398527008851 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 398527008852 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 398527008853 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398527008854 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 398527008855 putative NAD(P) binding site [chemical binding]; other site 398527008856 Cupin domain; Region: Cupin_2; cl09118 398527008857 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527008858 Membrane transport protein; Region: Mem_trans; cl09117 398527008859 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398527008860 Helix-turn-helix domains; Region: HTH; cl00088 398527008861 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 398527008862 dimerization interface [polypeptide binding]; other site 398527008863 substrate binding pocket [chemical binding]; other site 398527008864 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398527008865 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527008866 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398527008867 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527008868 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527008869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527008870 DNA-binding site [nucleotide binding]; DNA binding site 398527008871 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527008872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527008873 homodimer interface [polypeptide binding]; other site 398527008874 catalytic residue [active] 398527008875 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527008876 Flavin Reductases; Region: FlaRed; cl00801 398527008877 Low molecular weight phosphatase family; Region: LMWPc; cl00105 398527008878 active site 398527008879 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 398527008880 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527008881 Coenzyme A binding pocket [chemical binding]; other site 398527008882 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 398527008883 active site 398527008884 dimer interface [polypeptide binding]; other site 398527008885 motif 1; other site 398527008886 motif 2; other site 398527008887 motif 3; other site 398527008888 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 398527008889 anticodon binding site; other site 398527008890 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398527008891 amidohydrolase; Provisional; Region: PRK12393 398527008892 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 398527008893 active site 398527008894 putative substrate binding pocket [chemical binding]; other site 398527008895 xanthine permease; Region: pbuX; TIGR03173 398527008896 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398527008897 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 398527008898 P-loop, Walker A motif; other site 398527008899 Base recognition motif; other site 398527008900 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 398527008901 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 398527008902 Flavoprotein; Region: Flavoprotein; cl08021 398527008903 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 398527008904 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527008905 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527008906 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398527008907 Helix-turn-helix domains; Region: HTH; cl00088 398527008908 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527008909 dimerization interface [polypeptide binding]; other site 398527008910 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527008911 Helix-turn-helix domains; Region: HTH; cl00088 398527008912 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527008913 dimerization interface [polypeptide binding]; other site 398527008914 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398527008915 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527008916 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398527008917 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527008918 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527008919 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527008920 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527008921 D-galactonate transporter; Region: 2A0114; TIGR00893 398527008922 putative substrate translocation pore; other site 398527008923 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398527008924 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527008925 DNA-binding site [nucleotide binding]; DNA binding site 398527008926 UTRA domain; Region: UTRA; cl01230 398527008927 benzoate transport; Region: 2A0115; TIGR00895 398527008928 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527008929 putative substrate translocation pore; other site 398527008930 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398527008931 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527008932 active site 398527008933 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 398527008934 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527008935 Walker A/P-loop; other site 398527008936 ATP binding site [chemical binding]; other site 398527008937 Q-loop/lid; other site 398527008938 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 398527008939 ABC transporter signature motif; other site 398527008940 Walker B; other site 398527008941 D-loop; other site 398527008942 ABC transporter; Region: ABC_tran_2; pfam12848 398527008943 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 398527008944 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527008945 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 398527008946 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398527008947 ATP binding site [chemical binding]; other site 398527008948 Mg++ binding site [ion binding]; other site 398527008949 motif III; other site 398527008950 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527008951 nucleotide binding region [chemical binding]; other site 398527008952 ATP-binding site [chemical binding]; other site 398527008953 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 398527008954 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 398527008955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527008956 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527008957 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527008958 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 398527008959 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527008960 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527008961 putative substrate translocation pore; other site 398527008962 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527008963 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 398527008964 putative C-terminal domain interface [polypeptide binding]; other site 398527008965 putative GSH binding site (G-site) [chemical binding]; other site 398527008966 putative dimer interface [polypeptide binding]; other site 398527008967 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 398527008968 putative N-terminal domain interface [polypeptide binding]; other site 398527008969 putative dimer interface [polypeptide binding]; other site 398527008970 putative substrate binding pocket (H-site) [chemical binding]; other site 398527008971 Dienelactone hydrolase family; Region: DLH; pfam01738 398527008972 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527008973 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398527008974 AMP-binding enzyme; Region: AMP-binding; cl15778 398527008975 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527008976 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 398527008977 homotrimer interaction site [polypeptide binding]; other site 398527008978 putative active site [active] 398527008979 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398527008980 active site 398527008981 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527008982 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527008983 active site 398527008984 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398527008985 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527008986 substrate binding site [chemical binding]; other site 398527008987 oxyanion hole (OAH) forming residues; other site 398527008988 trimer interface [polypeptide binding]; other site 398527008989 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527008990 Helix-turn-helix domains; Region: HTH; cl00088 398527008991 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527008992 classical (c) SDRs; Region: SDR_c; cd05233 398527008993 NAD(P) binding site [chemical binding]; other site 398527008994 active site 398527008995 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 398527008996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527008997 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 398527008998 active site 398527008999 FMN binding site [chemical binding]; other site 398527009000 substrate binding site [chemical binding]; other site 398527009001 homotetramer interface [polypeptide binding]; other site 398527009002 catalytic residue [active] 398527009003 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 398527009004 Uncharacterized conserved protein [Function unknown]; Region: COG5361 398527009005 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 398527009006 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 398527009007 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 398527009008 homodimer interface [polypeptide binding]; other site 398527009009 oligomer interface [polypeptide binding]; other site 398527009010 chemical substrate binding site [chemical binding]; other site 398527009011 metal binding site [ion binding]; metal-binding site 398527009012 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009013 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527009014 putative substrate translocation pore; other site 398527009015 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009016 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527009017 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 398527009018 putative NAD(P) binding site [chemical binding]; other site 398527009019 putative active site [active] 398527009020 Sulfatase; Region: Sulfatase; cl10460 398527009021 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527009022 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527009023 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 398527009024 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 398527009025 CGNR zinc finger; Region: zf-CGNR; pfam11706 398527009026 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 398527009027 ArsC family; Region: ArsC; pfam03960 398527009028 catalytic residues [active] 398527009029 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 398527009030 Membrane transport protein; Region: Mem_trans; cl09117 398527009031 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527009032 putative DNA binding site [nucleotide binding]; other site 398527009033 putative Zn2+ binding site [ion binding]; other site 398527009034 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 398527009035 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 398527009036 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 398527009037 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 398527009038 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 398527009039 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 398527009040 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 398527009041 homotrimer interaction site [polypeptide binding]; other site 398527009042 putative active site [active] 398527009043 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 398527009044 putative hydrophobic ligand binding site [chemical binding]; other site 398527009045 Cupin domain; Region: Cupin_2; cl09118 398527009046 Protein of unknown function (DUF419); Region: DUF419; cl15265 398527009047 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 398527009048 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 398527009049 active site 398527009050 HIGH motif; other site 398527009051 dimer interface [polypeptide binding]; other site 398527009052 KMSKS motif; other site 398527009053 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 398527009054 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527009055 NAD binding site [chemical binding]; other site 398527009056 catalytic residues [active] 398527009057 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527009058 Helix-turn-helix domains; Region: HTH; cl00088 398527009059 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 398527009060 putative effector binding pocket; other site 398527009061 putative dimerization interface [polypeptide binding]; other site 398527009062 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527009063 metal binding site [ion binding]; metal-binding site 398527009064 active site 398527009065 I-site; other site 398527009066 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527009067 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398527009068 active site 398527009069 metal binding site [ion binding]; metal-binding site 398527009070 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 398527009071 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398527009072 metal binding site 2 [ion binding]; metal-binding site 398527009073 putative DNA binding helix; other site 398527009074 metal binding site 1 [ion binding]; metal-binding site 398527009075 dimer interface [polypeptide binding]; other site 398527009076 structural Zn2+ binding site [ion binding]; other site 398527009077 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527009078 trimer interface [polypeptide binding]; other site 398527009079 eyelet of channel; other site 398527009080 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 398527009081 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 398527009082 catalytic residues [active] 398527009083 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 398527009084 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527009085 dimer interface [polypeptide binding]; other site 398527009086 conserved gate region; other site 398527009087 putative PBP binding loops; other site 398527009088 ABC-ATPase subunit interface; other site 398527009089 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 398527009090 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527009091 dimer interface [polypeptide binding]; other site 398527009092 conserved gate region; other site 398527009093 putative PBP binding loops; other site 398527009094 ABC-ATPase subunit interface; other site 398527009095 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527009096 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398527009097 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527009098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527009099 NAD(P) binding site [chemical binding]; other site 398527009100 active site 398527009101 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398527009102 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 398527009103 Walker A/P-loop; other site 398527009104 ATP binding site [chemical binding]; other site 398527009105 Q-loop/lid; other site 398527009106 ABC transporter signature motif; other site 398527009107 Walker B; other site 398527009108 D-loop; other site 398527009109 H-loop/switch region; other site 398527009110 TOBE domain; Region: TOBE_2; cl01440 398527009111 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 398527009112 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398527009113 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398527009114 putative active site [active] 398527009115 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527009116 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527009117 Helix-turn-helix domains; Region: HTH; cl00088 398527009118 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527009119 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527009120 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 398527009121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527009122 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 398527009123 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 398527009124 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 398527009125 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 398527009126 putative FMN binding site [chemical binding]; other site 398527009127 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 398527009128 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527009129 Helix-turn-helix domains; Region: HTH; cl00088 398527009130 AsnC family; Region: AsnC_trans_reg; pfam01037 398527009131 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398527009132 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527009133 DNA binding site [nucleotide binding] 398527009134 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 398527009135 putative ligand binding site [chemical binding]; other site 398527009136 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 398527009137 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 398527009138 DctM-like transporters; Region: DctM; pfam06808 398527009139 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 398527009140 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 398527009141 dimer interface [polypeptide binding]; other site 398527009142 substrate binding site [chemical binding]; other site 398527009143 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527009144 metal binding site [ion binding]; metal-binding site 398527009145 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 398527009146 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 398527009147 dimer interface [polypeptide binding]; other site 398527009148 active site 398527009149 catalytic residue [active] 398527009150 metal binding site [ion binding]; metal-binding site 398527009151 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 398527009152 glucose-1-dehydrogenase; Provisional; Region: PRK08936 398527009153 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 398527009154 NAD binding site [chemical binding]; other site 398527009155 homodimer interface [polypeptide binding]; other site 398527009156 active site 398527009157 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 398527009158 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009159 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398527009160 putative substrate translocation pore; other site 398527009161 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527009162 Helix-turn-helix domains; Region: HTH; cl00088 398527009163 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009164 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527009165 putative substrate translocation pore; other site 398527009166 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009167 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 398527009168 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 398527009169 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 398527009170 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398527009171 Type II/IV secretion system protein; Region: T2SE; pfam00437 398527009172 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009173 Walker A motif; other site 398527009174 ATP binding site [chemical binding]; other site 398527009175 Walker B motif; other site 398527009176 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cl00234 398527009177 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398527009178 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 398527009179 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527009180 ATP binding site [chemical binding]; other site 398527009181 Mg2+ binding site [ion binding]; other site 398527009182 G-X-G motif; other site 398527009183 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527009184 active site 398527009185 phosphorylation site [posttranslational modification] 398527009186 intermolecular recognition site; other site 398527009187 dimerization interface [polypeptide binding]; other site 398527009188 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527009189 Helix-turn-helix domains; Region: HTH; cl00088 398527009190 Helix-turn-helix domains; Region: HTH; cl00088 398527009191 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398527009192 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 398527009193 FMN-binding pocket [chemical binding]; other site 398527009194 flavin binding motif; other site 398527009195 phosphate binding motif [ion binding]; other site 398527009196 beta-alpha-beta structure motif; other site 398527009197 NAD binding pocket [chemical binding]; other site 398527009198 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527009199 catalytic loop [active] 398527009200 iron binding site [ion binding]; other site 398527009201 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 398527009202 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398527009203 hydrophobic ligand binding site; other site 398527009204 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009205 D-galactonate transporter; Region: 2A0114; TIGR00893 398527009206 putative substrate translocation pore; other site 398527009207 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 398527009208 substrate binding pocket [chemical binding]; other site 398527009209 dimerization interface [polypeptide binding]; other site 398527009210 AAA domain; Region: AAA_22; pfam13401 398527009211 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527009212 Walker A motif; other site 398527009213 ATP binding site [chemical binding]; other site 398527009214 Walker B motif; other site 398527009215 arginine finger; other site 398527009216 Winged helix-turn helix; Region: HTH_29; pfam13551 398527009217 Integrase core domain; Region: rve; cl01316 398527009218 Integrase core domain; Region: rve_3; cl15866 398527009219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527009220 NAD(P) binding site [chemical binding]; other site 398527009221 active site 398527009222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527009223 active site 398527009224 phosphorylation site [posttranslational modification] 398527009225 intermolecular recognition site; other site 398527009226 dimerization interface [polypeptide binding]; other site 398527009227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527009228 active site 398527009229 phosphorylation site [posttranslational modification] 398527009230 intermolecular recognition site; other site 398527009231 dimerization interface [polypeptide binding]; other site 398527009232 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527009233 DNA binding residues [nucleotide binding] 398527009234 dimerization interface [polypeptide binding]; other site 398527009235 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 398527009236 PAS domain S-box; Region: sensory_box; TIGR00229 398527009237 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527009238 putative active site [active] 398527009239 heme pocket [chemical binding]; other site 398527009240 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527009241 PAS fold; Region: PAS_3; pfam08447 398527009242 putative active site [active] 398527009243 heme pocket [chemical binding]; other site 398527009244 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527009245 dimer interface [polypeptide binding]; other site 398527009246 phosphorylation site [posttranslational modification] 398527009247 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 398527009248 catalytic residues [active] 398527009249 Int/Topo IB signature motif; other site 398527009250 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527009251 non-specific DNA binding site [nucleotide binding]; other site 398527009252 salt bridge; other site 398527009253 sequence-specific DNA binding site [nucleotide binding]; other site 398527009254 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 398527009255 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 398527009256 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527009257 non-specific DNA binding site [nucleotide binding]; other site 398527009258 salt bridge; other site 398527009259 sequence-specific DNA binding site [nucleotide binding]; other site 398527009260 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 398527009261 Zeta toxin; Region: Zeta_toxin; pfam06414 398527009262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009263 Methyltransferase domain; Region: Methyltransf_27; pfam13708 398527009264 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 398527009265 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527009266 S-adenosylmethionine binding site [chemical binding]; other site 398527009267 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 398527009268 plasmid partitioning protein; Provisional; Region: PRK13832 398527009269 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 398527009270 Domain of unknown function (DUF932); Region: DUF932; cl12129 398527009271 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009272 active site 398527009273 DNA binding site [nucleotide binding] 398527009274 Int/Topo IB signature motif; other site 398527009275 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009276 active site 398527009277 DNA binding site [nucleotide binding] 398527009278 Int/Topo IB signature motif; other site 398527009279 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 398527009280 Domain of unknown function (DUF932); Region: DUF932; cl12129 398527009281 KicB killing factor; Region: KicB; cl11468 398527009282 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 398527009283 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 398527009284 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009285 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 398527009286 Walker A motif; other site 398527009287 ATP binding site [chemical binding]; other site 398527009288 Walker B motif; other site 398527009289 TrwC relaxase; Region: TrwC; pfam08751 398527009290 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 398527009291 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009292 conjugal transfer nickase/helicase TraI; Provisional; Region: PRK13709 398527009293 Family description; Region: UvrD_C_2; cl15862 398527009294 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527009295 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527009296 catalytic residue [active] 398527009297 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 398527009298 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 398527009299 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 398527009300 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 398527009301 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 398527009302 VirB8 protein; Region: VirB8; cl01500 398527009303 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 398527009304 VirB7 interaction site; other site 398527009305 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 398527009306 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 398527009307 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 398527009308 Walker A motif; other site 398527009309 hexamer interface [polypeptide binding]; other site 398527009310 ATP binding site [chemical binding]; other site 398527009311 Walker B motif; other site 398527009312 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398527009313 catalytic site [active] 398527009314 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009315 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 398527009316 active site 398527009317 DNA binding site [nucleotide binding] 398527009318 Int/Topo IB signature motif; other site 398527009319 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398527009320 putative active site [active] 398527009321 catalytic site [active] 398527009322 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 398527009323 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009324 active site 398527009325 DNA binding site [nucleotide binding] 398527009326 Int/Topo IB signature motif; other site 398527009327 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009328 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009329 active site 398527009330 DNA binding site [nucleotide binding] 398527009331 Int/Topo IB signature motif; other site 398527009332 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398527009333 putative active site [active] 398527009334 H-NS histone family; Region: Histone_HNS; pfam00816 398527009335 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527009336 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 398527009337 active site 398527009338 putative substrate binding region [chemical binding]; other site 398527009339 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 398527009340 DNA-binding interface [nucleotide binding]; DNA binding site 398527009341 Replication initiator protein A; Region: RPA; cl02339 398527009342 SprT-like family; Region: SprT-like; pfam10263 398527009343 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 398527009344 H-NS histone family; Region: Histone_HNS; pfam00816 398527009345 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527009346 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527009347 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527009348 catalytic residue [active] 398527009349 DnaA N-terminal domain; Region: DnaA_N; pfam11638 398527009350 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 398527009351 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527009352 Walker A motif; other site 398527009353 ATP binding site [chemical binding]; other site 398527009354 Walker B motif; other site 398527009355 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009356 arginine finger; other site 398527009357 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 398527009358 DnaA box-binding interface [nucleotide binding]; other site 398527009359 DNA polymerase III subunit beta; Validated; Region: PRK05643 398527009360 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 398527009361 putative DNA binding surface [nucleotide binding]; other site 398527009362 dimer interface [polypeptide binding]; other site 398527009363 beta-clamp/clamp loader binding surface; other site 398527009364 beta-clamp/translesion DNA polymerase binding surface; other site 398527009365 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 398527009366 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527009367 ATP binding site [chemical binding]; other site 398527009368 Mg2+ binding site [ion binding]; other site 398527009369 G-X-G motif; other site 398527009370 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 398527009371 anchoring element; other site 398527009372 dimer interface [polypeptide binding]; other site 398527009373 ATP binding site [chemical binding]; other site 398527009374 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 398527009375 active site 398527009376 putative metal-binding site [ion binding]; other site 398527009377 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398527009378 PAAR motif; Region: PAAR_motif; cl15808 398527009379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398527009380 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 398527009381 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398527009382 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398527009383 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398527009384 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 398527009385 PAAR motif; Region: PAAR_motif; cl15808 398527009386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 398527009387 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 398527009388 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 398527009389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 398527009390 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009391 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 398527009392 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 398527009393 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 398527009394 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 398527009395 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 398527009396 putative active site [active] 398527009397 putative NTP binding site [chemical binding]; other site 398527009398 putative nucleic acid binding site [nucleotide binding]; other site 398527009399 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527009400 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527009401 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 398527009402 ethanolamine permease; Region: 2A0305; TIGR00908 398527009403 Spore germination protein; Region: Spore_permease; cl15802 398527009404 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 398527009405 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 398527009406 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 398527009407 Protein of unknown function (DUF779); Region: DUF779; cl01432 398527009408 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 398527009409 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527009410 NAD(P) binding site [chemical binding]; other site 398527009411 catalytic residues [active] 398527009412 transcriptional regulator EutR; Provisional; Region: PRK10130 398527009413 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527009414 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398527009415 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 398527009416 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398527009417 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527009418 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 398527009419 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 398527009420 DNA binding residues [nucleotide binding] 398527009421 dimer interface [polypeptide binding]; other site 398527009422 putative metal binding site [ion binding]; other site 398527009423 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 398527009424 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 398527009425 ATP binding site [chemical binding]; other site 398527009426 Mg++ binding site [ion binding]; other site 398527009427 motif III; other site 398527009428 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527009429 nucleotide binding region [chemical binding]; other site 398527009430 ATP-binding site [chemical binding]; other site 398527009431 DbpA RNA binding domain; Region: DbpA; pfam03880 398527009432 putative aminotransferase; Provisional; Region: PRK12414 398527009433 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527009434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527009435 homodimer interface [polypeptide binding]; other site 398527009436 catalytic residue [active] 398527009437 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398527009438 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527009439 substrate binding pocket [chemical binding]; other site 398527009440 membrane-bound complex binding site; other site 398527009441 hinge residues; other site 398527009442 Cupin domain; Region: Cupin_2; cl09118 398527009443 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527009444 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527009445 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527009446 LysE type translocator; Region: LysE; cl00565 398527009447 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398527009448 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009449 putative substrate translocation pore; other site 398527009450 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 398527009451 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527009452 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527009453 Helix-turn-helix domains; Region: HTH; cl00088 398527009454 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 398527009455 putative effector binding pocket; other site 398527009456 putative dimerization interface [polypeptide binding]; other site 398527009457 putative amidase; Provisional; Region: PRK06169 398527009458 Amidase; Region: Amidase; cl11426 398527009459 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398527009460 Helix-turn-helix domains; Region: HTH; cl00088 398527009461 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527009462 allantoate amidohydrolase; Reviewed; Region: PRK09290 398527009463 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398527009464 active site 398527009465 metal binding site [ion binding]; metal-binding site 398527009466 dimer interface [polypeptide binding]; other site 398527009467 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527009468 active site 398527009469 ATP binding site [chemical binding]; other site 398527009470 Phosphotransferase enzyme family; Region: APH; pfam01636 398527009471 substrate binding site [chemical binding]; other site 398527009472 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 398527009473 Phosphotransferase enzyme family; Region: APH; pfam01636 398527009474 active site 398527009475 ATP binding site [chemical binding]; other site 398527009476 substrate binding site [chemical binding]; other site 398527009477 dimer interface [polypeptide binding]; other site 398527009478 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 398527009479 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398527009480 Na binding site [ion binding]; other site 398527009481 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 398527009482 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527009483 inhibitor-cofactor binding pocket; inhibition site 398527009484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527009485 catalytic residue [active] 398527009486 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527009487 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 398527009488 ligand binding site [chemical binding]; other site 398527009489 regulator interaction site; other site 398527009490 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 398527009491 ANTAR domain; Region: ANTAR; cl04297 398527009492 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398527009493 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 398527009494 putative active site [active] 398527009495 catalytic triad [active] 398527009496 putative dimer interface [polypeptide binding]; other site 398527009497 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527009498 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 398527009499 putative ligand binding site [chemical binding]; other site 398527009500 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527009501 TM-ABC transporter signature motif; other site 398527009502 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527009503 TM-ABC transporter signature motif; other site 398527009504 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527009505 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527009506 Walker A/P-loop; other site 398527009507 ATP binding site [chemical binding]; other site 398527009508 Q-loop/lid; other site 398527009509 ABC transporter signature motif; other site 398527009510 Walker B; other site 398527009511 D-loop; other site 398527009512 H-loop/switch region; other site 398527009513 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 398527009514 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527009515 Walker A/P-loop; other site 398527009516 ATP binding site [chemical binding]; other site 398527009517 Q-loop/lid; other site 398527009518 ABC transporter signature motif; other site 398527009519 Walker B; other site 398527009520 D-loop; other site 398527009521 H-loop/switch region; other site 398527009522 bifunctional urease subunit gamma/beta; Reviewed; Region: PRK13192 398527009523 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 398527009524 alpha-gamma subunit interface [polypeptide binding]; other site 398527009525 beta-gamma subunit interface [polypeptide binding]; other site 398527009526 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 398527009527 alpha-beta subunit interface [polypeptide binding]; other site 398527009528 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527009529 urease subunit alpha; Reviewed; Region: ureC; PRK13207 398527009530 active site 398527009531 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009532 UreD urease accessory protein; Region: UreD; cl00530 398527009533 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 398527009534 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 398527009535 dimer interface [polypeptide binding]; other site 398527009536 catalytic residues [active] 398527009537 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 398527009538 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 398527009539 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 398527009540 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527009541 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527009542 DNA binding site [nucleotide binding] 398527009543 domain linker motif; other site 398527009544 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 398527009545 putative dimerization interface [polypeptide binding]; other site 398527009546 putative ligand binding site [chemical binding]; other site 398527009547 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 398527009548 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527009549 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 398527009550 dimerization interface [polypeptide binding]; other site 398527009551 ligand binding site [chemical binding]; other site 398527009552 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 398527009553 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 398527009554 Heme NO binding; Region: HNOB; cl15268 398527009555 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527009556 active site 398527009557 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527009558 Helix-turn-helix domains; Region: HTH; cl00088 398527009559 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009560 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527009561 putative substrate translocation pore; other site 398527009562 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527009563 trimer interface [polypeptide binding]; other site 398527009564 eyelet of channel; other site 398527009565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527009566 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 398527009567 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 398527009568 zinc binding site [ion binding]; other site 398527009569 putative ligand binding site [chemical binding]; other site 398527009570 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 398527009571 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009572 Walker A/P-loop; other site 398527009573 ATP binding site [chemical binding]; other site 398527009574 Q-loop/lid; other site 398527009575 ABC transporter signature motif; other site 398527009576 Walker B; other site 398527009577 D-loop; other site 398527009578 H-loop/switch region; other site 398527009579 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 398527009580 TM-ABC transporter signature motif; other site 398527009581 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 398527009582 Flavoprotein; Region: Flavoprotein; cl08021 398527009583 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 398527009584 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527009585 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527009586 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527009587 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 398527009588 NAD(P) binding site [chemical binding]; other site 398527009589 catalytic residues [active] 398527009590 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527009591 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527009592 DNA binding site [nucleotide binding] 398527009593 domain linker motif; other site 398527009594 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 398527009595 putative dimerization interface [polypeptide binding]; other site 398527009596 putative ligand binding site [chemical binding]; other site 398527009597 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398527009598 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527009599 transcriptional activator TtdR; Provisional; Region: PRK09801 398527009600 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527009601 putative effector binding pocket; other site 398527009602 dimerization interface [polypeptide binding]; other site 398527009603 Domain of unknown function (DUF336); Region: DUF336; cl01249 398527009604 Major royal jelly protein; Region: MRJP; pfam03022 398527009605 putative transporter; Provisional; Region: PRK12382 398527009606 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009607 putative substrate translocation pore; other site 398527009608 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 398527009609 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 398527009610 AAA domain; Region: AAA_22; pfam13401 398527009611 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527009612 Walker A motif; other site 398527009613 ATP binding site [chemical binding]; other site 398527009614 Walker B motif; other site 398527009615 arginine finger; other site 398527009616 Winged helix-turn helix; Region: HTH_29; pfam13551 398527009617 Integrase core domain; Region: rve; cl01316 398527009618 Integrase core domain; Region: rve_3; cl15866 398527009619 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009620 Walker A/P-loop; other site 398527009621 ATP binding site [chemical binding]; other site 398527009622 Q-loop/lid; other site 398527009623 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 398527009624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009626 ABC transporter signature motif; other site 398527009627 Walker B; other site 398527009628 D-loop; other site 398527009629 H-loop/switch region; other site 398527009630 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 398527009631 AAA domain; Region: AAA_21; pfam13304 398527009632 recombination factor protein RarA; Reviewed; Region: PRK13342 398527009633 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527009634 Walker A motif; other site 398527009635 ATP binding site [chemical binding]; other site 398527009636 Walker B motif; other site 398527009637 arginine finger; other site 398527009638 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 398527009639 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398527009640 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527009641 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527009642 Predicted esterase [General function prediction only]; Region: COG0627 398527009643 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527009644 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 398527009645 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527009646 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 398527009647 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 398527009648 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 398527009649 substrate binding site [chemical binding]; other site 398527009650 catalytic Zn binding site [ion binding]; other site 398527009651 NAD binding site [chemical binding]; other site 398527009652 structural Zn binding site [ion binding]; other site 398527009653 dimer interface [polypeptide binding]; other site 398527009654 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 398527009655 putative metal binding site [ion binding]; other site 398527009656 putative homodimer interface [polypeptide binding]; other site 398527009657 putative homotetramer interface [polypeptide binding]; other site 398527009658 putative homodimer-homodimer interface [polypeptide binding]; other site 398527009659 putative allosteric switch controlling residues; other site 398527009660 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 398527009661 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 398527009662 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 398527009663 NAD binding site [chemical binding]; other site 398527009664 catalytic Zn binding site [ion binding]; other site 398527009665 structural Zn binding site [ion binding]; other site 398527009666 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527009667 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398527009668 conserved cys residue [active] 398527009669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527009670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527009671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527009672 Helix-turn-helix domains; Region: HTH; cl00088 398527009673 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527009674 dimerization interface [polypeptide binding]; other site 398527009675 excinuclease ABC subunit B; Provisional; Region: PRK05298 398527009676 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527009677 ATP binding site [chemical binding]; other site 398527009678 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527009679 nucleotide binding region [chemical binding]; other site 398527009680 ATP-binding site [chemical binding]; other site 398527009681 Ultra-violet resistance protein B; Region: UvrB; pfam12344 398527009682 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 398527009683 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 398527009684 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398527009685 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398527009686 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 398527009687 periplasmic protein; Provisional; Region: PRK10568 398527009688 BON domain; Region: BON; cl02771 398527009689 Protein of unknown function, DUF488; Region: DUF488; cl01246 398527009690 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527009691 Autoinducer binding domain; Region: Autoind_bind; pfam03472 398527009692 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527009693 DNA binding residues [nucleotide binding] 398527009694 dimerization interface [polypeptide binding]; other site 398527009695 AAA domain; Region: AAA_22; pfam13401 398527009696 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527009697 Walker A motif; other site 398527009698 ATP binding site [chemical binding]; other site 398527009699 Walker B motif; other site 398527009700 arginine finger; other site 398527009701 Winged helix-turn helix; Region: HTH_29; pfam13551 398527009702 Integrase core domain; Region: rve; cl01316 398527009703 Integrase core domain; Region: rve_3; cl15866 398527009704 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 398527009705 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 398527009706 dimer interface [polypeptide binding]; other site 398527009707 active site 398527009708 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 398527009709 active site 398527009710 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398527009711 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398527009712 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527009713 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 398527009714 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 398527009715 dimer interface [polypeptide binding]; other site 398527009716 active site 398527009717 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398527009718 catalytic residues [active] 398527009719 substrate binding site [chemical binding]; other site 398527009720 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 398527009721 AMP-binding enzyme; Region: AMP-binding; cl15778 398527009722 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 398527009723 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 398527009724 active site 398527009725 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 398527009726 active site 398527009727 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527009728 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398527009729 active site 398527009730 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527009731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527009732 DNA-binding site [nucleotide binding]; DNA binding site 398527009733 FCD domain; Region: FCD; cl11656 398527009734 putative amidase; Provisional; Region: PRK06169 398527009735 Amidase; Region: Amidase; cl11426 398527009736 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527009737 non-specific DNA binding site [nucleotide binding]; other site 398527009738 salt bridge; other site 398527009739 sequence-specific DNA binding site [nucleotide binding]; other site 398527009740 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527009741 non-specific DNA binding site [nucleotide binding]; other site 398527009742 salt bridge; other site 398527009743 sequence-specific DNA binding site [nucleotide binding]; other site 398527009744 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527009745 TM-ABC transporter signature motif; other site 398527009746 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527009747 TM-ABC transporter signature motif; other site 398527009748 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 398527009749 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527009750 Walker A/P-loop; other site 398527009751 ATP binding site [chemical binding]; other site 398527009752 Q-loop/lid; other site 398527009753 ABC transporter signature motif; other site 398527009754 Walker B; other site 398527009755 D-loop; other site 398527009756 H-loop/switch region; other site 398527009757 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527009758 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527009759 Walker A/P-loop; other site 398527009760 ATP binding site [chemical binding]; other site 398527009761 Q-loop/lid; other site 398527009762 ABC transporter signature motif; other site 398527009763 Walker B; other site 398527009764 D-loop; other site 398527009765 H-loop/switch region; other site 398527009766 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527009767 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 398527009768 ligand binding site [chemical binding]; other site 398527009769 putative amidase; Provisional; Region: PRK06169 398527009770 Amidase; Region: Amidase; cl11426 398527009771 Amino acid synthesis; Region: AA_synth; pfam06684 398527009772 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527009773 trimer interface [polypeptide binding]; other site 398527009774 eyelet of channel; other site 398527009775 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398527009776 Condensation domain; Region: Condensation; pfam00668 398527009777 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 398527009778 oligomeric interface; other site 398527009779 putative active site [active] 398527009780 homodimer interface [polypeptide binding]; other site 398527009781 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 398527009782 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398527009783 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527009784 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527009785 catalytic residue [active] 398527009786 TrbC/VIRB2 family; Region: TrbC; cl01583 398527009787 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 398527009788 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 398527009789 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 398527009790 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 398527009791 Type IV secretion system proteins; Region: T4SS; pfam07996 398527009792 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 398527009793 VirB8 protein; Region: VirB8; cl01500 398527009794 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 398527009795 VirB7 interaction site; other site 398527009796 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 398527009797 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 398527009798 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 398527009799 Walker A motif; other site 398527009800 hexamer interface [polypeptide binding]; other site 398527009801 ATP binding site [chemical binding]; other site 398527009802 Walker B motif; other site 398527009803 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 398527009804 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 398527009805 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527009806 Walker A motif; other site 398527009807 ATP binding site [chemical binding]; other site 398527009808 Walker B motif; other site 398527009809 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 398527009810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 398527009811 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 398527009812 active site 398527009813 metal binding site [ion binding]; metal-binding site 398527009814 interdomain interaction site; other site 398527009815 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 398527009816 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527009817 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398527009818 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 398527009819 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398527009820 NAD(P) binding site [chemical binding]; other site 398527009821 homotetramer interface [polypeptide binding]; other site 398527009822 homodimer interface [polypeptide binding]; other site 398527009823 active site 398527009824 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 398527009825 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 398527009826 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527009827 metal binding site [ion binding]; metal-binding site 398527009828 active site 398527009829 I-site; other site 398527009830 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527009831 PAS domain S-box; Region: sensory_box; TIGR00229 398527009832 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527009833 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527009834 dimer interface [polypeptide binding]; other site 398527009835 phosphorylation site [posttranslational modification] 398527009836 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527009837 ATP binding site [chemical binding]; other site 398527009838 Mg2+ binding site [ion binding]; other site 398527009839 G-X-G motif; other site 398527009840 Response regulator receiver domain; Region: Response_reg; pfam00072 398527009841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527009842 active site 398527009843 phosphorylation site [posttranslational modification] 398527009844 intermolecular recognition site; other site 398527009845 dimerization interface [polypeptide binding]; other site 398527009846 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 398527009847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527009848 active site 398527009849 phosphorylation site [posttranslational modification] 398527009850 intermolecular recognition site; other site 398527009851 dimerization interface [polypeptide binding]; other site 398527009852 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398527009853 Zn2+ binding site [ion binding]; other site 398527009854 Mg2+ binding site [ion binding]; other site 398527009855 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527009856 trimer interface [polypeptide binding]; other site 398527009857 eyelet of channel; other site 398527009858 benzoate transport; Region: 2A0115; TIGR00895 398527009859 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009860 putative substrate translocation pore; other site 398527009861 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009862 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 398527009863 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398527009864 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527009865 active site 398527009866 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527009867 Helix-turn-helix domains; Region: HTH; cl00088 398527009868 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527009869 transposase/IS protein; Provisional; Region: PRK09183 398527009870 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527009871 Walker A motif; other site 398527009872 ATP binding site [chemical binding]; other site 398527009873 Walker B motif; other site 398527009874 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398527009875 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527009876 Walker A motif; other site 398527009877 ATP binding site [chemical binding]; other site 398527009878 Walker B motif; other site 398527009879 Integrase core domain; Region: rve; cl01316 398527009880 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 398527009881 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 398527009882 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 398527009883 generic binding surface I; other site 398527009884 generic binding surface II; other site 398527009885 DNA Polymerase Y-family; Region: PolY_like; cd03468 398527009886 active site 398527009887 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 398527009888 DNA binding site [nucleotide binding] 398527009889 Cell division inhibitor SulA; Region: SulA; cl01880 398527009890 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527009891 putative DNA binding site [nucleotide binding]; other site 398527009892 putative Zn2+ binding site [ion binding]; other site 398527009893 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398527009894 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398527009895 active site 398527009896 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 398527009897 Membrane transport protein; Region: Mem_trans; cl09117 398527009898 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527009899 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527009900 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527009901 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527009902 putative substrate translocation pore; other site 398527009903 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 398527009904 DNA binding site [nucleotide binding] 398527009905 active site 398527009906 Int/Topo IB signature motif; other site 398527009907 catalytic residues [active] 398527009908 Putative phage integrase; Region: Phage_Integr_2; pfam13009 398527009909 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009910 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 398527009911 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527009912 dimer interface [polypeptide binding]; other site 398527009913 putative CheW interface [polypeptide binding]; other site 398527009914 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 398527009915 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 398527009916 heme binding site [chemical binding]; other site 398527009917 ferroxidase pore; other site 398527009918 ferroxidase diiron center [ion binding]; other site 398527009919 cyanate hydratase; Validated; Region: PRK02866 398527009920 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 398527009921 oligomer interface [polypeptide binding]; other site 398527009922 active site 398527009923 classical (c) SDRs; Region: SDR_c; cd05233 398527009924 NAD(P) binding site [chemical binding]; other site 398527009925 active site 398527009926 Helix-turn-helix domains; Region: HTH; cl00088 398527009927 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527009928 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527009929 putative effector binding pocket; other site 398527009930 dimerization interface [polypeptide binding]; other site 398527009931 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398527009932 Cytochrome c; Region: Cytochrom_C; cl11414 398527009933 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398527009934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527009935 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527009936 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 398527009937 Helix-turn-helix domains; Region: HTH; cl00088 398527009938 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398527009939 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527009940 dimer interface [polypeptide binding]; other site 398527009941 putative CheW interface [polypeptide binding]; other site 398527009942 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527009943 metal binding site [ion binding]; metal-binding site 398527009944 active site 398527009945 I-site; other site 398527009946 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398527009947 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398527009948 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 398527009949 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 398527009950 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009951 active site 398527009952 DNA binding site [nucleotide binding] 398527009953 Int/Topo IB signature motif; other site 398527009954 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009955 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 398527009956 active site 398527009957 DNA binding site [nucleotide binding] 398527009958 Int/Topo IB signature motif; other site 398527009959 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 398527009960 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 398527009961 Int/Topo IB signature motif; other site 398527009962 Domain of unknown function (DUF932); Region: DUF932; cl12129 398527009963 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 398527009964 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009965 active site 398527009966 DNA binding site [nucleotide binding] 398527009967 Int/Topo IB signature motif; other site 398527009968 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009969 active site 398527009970 DNA binding site [nucleotide binding] 398527009971 Int/Topo IB signature motif; other site 398527009972 Domain of unknown function (DUF932); Region: DUF932; cl12129 398527009973 Helix-turn-helix domain; Region: HTH_18; pfam12833 398527009974 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 398527009975 transmembrane helices; other site 398527009976 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398527009977 Helix-turn-helix domains; Region: HTH; cl00088 398527009978 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 398527009979 dimerization interface [polypeptide binding]; other site 398527009980 substrate binding pocket [chemical binding]; other site 398527009981 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 398527009982 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 398527009983 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 398527009984 catalytic triad [active] 398527009985 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 398527009986 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527009987 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 398527009988 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527009989 H-NS histone family; Region: Histone_HNS; pfam00816 398527009990 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527009991 integrase; Provisional; Region: int; PHA02601 398527009992 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527009993 active site 398527009994 DNA binding site [nucleotide binding] 398527009995 Int/Topo IB signature motif; other site 398527009996 Helix-turn-helix domains; Region: HTH; cl00088 398527009997 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527009998 AsnC family; Region: AsnC_trans_reg; pfam01037 398527009999 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527010000 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527010001 catalytic residue [active] 398527010002 LysE type translocator; Region: LysE; cl00565 398527010003 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 398527010004 active site 398527010005 DNA polymerase IV; Validated; Region: PRK02406 398527010006 DNA binding site [nucleotide binding] 398527010007 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527010008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527010009 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 398527010010 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527010011 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527010012 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398527010013 Helix-turn-helix domains; Region: HTH; cl00088 398527010014 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527010015 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527010016 putative substrate translocation pore; other site 398527010017 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 398527010018 Cupin domain; Region: Cupin_2; cl09118 398527010019 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527010020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527010021 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 398527010022 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398527010023 active site 398527010024 nucleotide binding site [chemical binding]; other site 398527010025 HIGH motif; other site 398527010026 KMSKS motif; other site 398527010027 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398527010028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527010029 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 398527010030 putative catalytic site [active] 398527010031 putative metal binding site [ion binding]; other site 398527010032 putative phosphate binding site [ion binding]; other site 398527010033 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527010034 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527010035 putative substrate translocation pore; other site 398527010036 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398527010037 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 398527010038 P-loop, Walker A motif; other site 398527010039 Base recognition motif; other site 398527010040 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 398527010041 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 398527010042 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 398527010043 intersubunit interface [polypeptide binding]; other site 398527010044 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 398527010045 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527010046 Walker A/P-loop; other site 398527010047 ATP binding site [chemical binding]; other site 398527010048 Q-loop/lid; other site 398527010049 ABC transporter signature motif; other site 398527010050 Walker B; other site 398527010051 D-loop; other site 398527010052 H-loop/switch region; other site 398527010053 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 398527010054 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 398527010055 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 398527010056 Fic/DOC family; Region: Fic; cl00960 398527010057 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398527010058 CoenzymeA binding site [chemical binding]; other site 398527010059 subunit interaction site [polypeptide binding]; other site 398527010060 PHB binding site; other site 398527010061 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 398527010062 active site 398527010063 nucleophile elbow; other site 398527010064 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398527010065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527010066 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 398527010067 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 398527010068 active site 398527010069 substrate-binding site [chemical binding]; other site 398527010070 metal-binding site [ion binding] 398527010071 GTP binding site [chemical binding]; other site 398527010072 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527010073 Helix-turn-helix domains; Region: HTH; cl00088 398527010074 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527010075 putative effector binding pocket; other site 398527010076 dimerization interface [polypeptide binding]; other site 398527010077 DNA topoisomerase III; Validated; Region: PRK08173 398527010078 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 398527010079 active site 398527010080 putative interdomain interaction site [polypeptide binding]; other site 398527010081 putative metal-binding site [ion binding]; other site 398527010082 putative nucleotide binding site [chemical binding]; other site 398527010083 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 398527010084 domain I; other site 398527010085 DNA binding groove [nucleotide binding] 398527010086 phosphate binding site [ion binding]; other site 398527010087 domain II; other site 398527010088 domain III; other site 398527010089 nucleotide binding site [chemical binding]; other site 398527010090 catalytic site [active] 398527010091 domain IV; other site 398527010092 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 398527010093 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 398527010094 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 398527010095 catalytic residues [active] 398527010096 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 398527010097 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 398527010098 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 398527010099 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 398527010100 active site 398527010101 catalytic residues [active] 398527010102 metal binding site [ion binding]; metal-binding site 398527010103 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 398527010104 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 398527010105 putative active site [active] 398527010106 substrate binding site [chemical binding]; other site 398527010107 putative cosubstrate binding site; other site 398527010108 catalytic site [active] 398527010109 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 398527010110 substrate binding site [chemical binding]; other site 398527010111 LysE type translocator; Region: LysE; cl00565 398527010112 Peptidase family M48; Region: Peptidase_M48; cl12018 398527010113 16S rRNA methyltransferase B; Provisional; Region: PRK10901 398527010114 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 398527010115 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527010116 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 398527010117 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 398527010118 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527010119 dimerization interface [polypeptide binding]; other site 398527010120 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527010121 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527010122 dimer interface [polypeptide binding]; other site 398527010123 phosphorylation site [posttranslational modification] 398527010124 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527010125 ATP binding site [chemical binding]; other site 398527010126 Mg2+ binding site [ion binding]; other site 398527010127 G-X-G motif; other site 398527010128 Response regulator receiver domain; Region: Response_reg; pfam00072 398527010129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527010130 active site 398527010131 phosphorylation site [posttranslational modification] 398527010132 intermolecular recognition site; other site 398527010133 dimerization interface [polypeptide binding]; other site 398527010134 Helix-turn-helix domains; Region: HTH; cl00088 398527010135 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 398527010136 Ligand Binding Site [chemical binding]; other site 398527010137 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 398527010138 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 398527010139 FeS/SAM binding site; other site 398527010140 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 398527010141 active site 398527010142 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 398527010143 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 398527010144 Sel1 repeat; Region: Sel1; cl02723 398527010145 Sel1 repeat; Region: Sel1; cl02723 398527010146 Sel1 repeat; Region: Sel1; cl02723 398527010147 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 398527010148 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 398527010149 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398527010150 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527010151 rod shape-determining protein MreD; Region: MreD; cl01087 398527010152 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 398527010153 rod shape-determining protein MreC; Region: MreC; pfam04085 398527010154 rod shape-determining protein MreB; Provisional; Region: PRK13927 398527010155 Cell division protein FtsA; Region: FtsA; cl11496 398527010156 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 398527010157 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398527010158 Amidase; Region: Amidase; cl11426 398527010159 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 398527010160 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 398527010161 GatB domain; Region: GatB_Yqey; cl11497 398527010162 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 398527010163 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 398527010164 putative active site [active] 398527010165 putative catalytic site [active] 398527010166 putative DNA binding site [nucleotide binding]; other site 398527010167 putative phosphate binding site [ion binding]; other site 398527010168 metal binding site A [ion binding]; metal-binding site 398527010169 putative AP binding site [nucleotide binding]; other site 398527010170 putative metal binding site B [ion binding]; other site 398527010171 Peptidase family M48; Region: Peptidase_M48; cl12018 398527010172 muropeptide transporter; Validated; Region: ampG; PRK11010 398527010173 muropeptide transporter; Reviewed; Region: ampG; PRK11902 398527010174 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527010175 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527010176 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 398527010177 division inhibitor protein; Provisional; Region: slmA; PRK09480 398527010178 Helix-turn-helix domains; Region: HTH; cl00088 398527010179 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527010180 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 398527010181 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 398527010182 feedback inhibition sensing region; other site 398527010183 homohexameric interface [polypeptide binding]; other site 398527010184 nucleotide binding site [chemical binding]; other site 398527010185 N-acetyl-L-glutamate binding site [chemical binding]; other site 398527010186 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527010187 binding surface 398527010188 TPR motif; other site 398527010189 TPR repeat; Region: TPR_11; pfam13414 398527010190 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527010191 TPR motif; other site 398527010192 binding surface 398527010193 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398527010194 adaptive-response sensory kinase; Validated; Region: PRK09303 398527010195 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527010196 ATP binding site [chemical binding]; other site 398527010197 Mg2+ binding site [ion binding]; other site 398527010198 G-X-G motif; other site 398527010199 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 398527010200 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527010201 active site 398527010202 phosphorylation site [posttranslational modification] 398527010203 intermolecular recognition site; other site 398527010204 dimerization interface [polypeptide binding]; other site 398527010205 Helix-turn-helix domains; Region: HTH; cl00088 398527010206 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 398527010207 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527010208 Walker A motif; other site 398527010209 ATP binding site [chemical binding]; other site 398527010210 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527010211 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 398527010212 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 398527010213 active site 398527010214 HslU subunit interaction site [polypeptide binding]; other site 398527010215 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 398527010216 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398527010217 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 398527010218 P-loop, Walker A motif; other site 398527010219 Base recognition motif; other site 398527010220 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 398527010221 PUA domain; Region: PUA; cl00607 398527010222 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 398527010223 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 398527010224 putative RNA binding site [nucleotide binding]; other site 398527010225 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527010226 S-adenosylmethionine binding site [chemical binding]; other site 398527010227 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 398527010228 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527010229 active site 398527010230 DNA binding site [nucleotide binding] 398527010231 Int/Topo IB signature motif; other site 398527010232 GAF domain; Region: GAF; cl15785 398527010233 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 398527010234 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398527010235 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398527010236 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398527010237 putative acyl-acceptor binding pocket; other site 398527010238 S-adenosylmethionine synthetase; Validated; Region: PRK05250 398527010239 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 398527010240 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 398527010241 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 398527010242 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527010243 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 398527010244 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527010245 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527010246 active site 398527010247 catalytic tetrad [active] 398527010248 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527010249 putative substrate translocation pore; other site 398527010250 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527010251 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398527010252 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527010253 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398527010254 Protein export membrane protein; Region: SecD_SecF; cl14618 398527010255 Phosphotransferase enzyme family; Region: APH; pfam01636 398527010256 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527010257 active site 398527010258 ATP binding site [chemical binding]; other site 398527010259 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 398527010260 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 398527010261 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 398527010262 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 398527010263 XdhC Rossmann domain; Region: XdhC_C; pfam13478 398527010264 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 398527010265 putative hydrophobic ligand binding site [chemical binding]; other site 398527010266 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 398527010267 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 398527010268 metal ion-dependent adhesion site (MIDAS); other site 398527010269 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527010270 Walker A motif; other site 398527010271 ATP binding site [chemical binding]; other site 398527010272 Walker B motif; other site 398527010273 arginine finger; other site 398527010274 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 398527010275 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 398527010276 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 398527010277 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527010278 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527010279 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398527010280 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527010281 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 398527010282 amino acid transporter; Region: 2A0306; TIGR00909 398527010283 Spore germination protein; Region: Spore_permease; cl15802 398527010284 Spore germination protein; Region: Spore_permease; cl15802 398527010285 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527010286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527010287 active site 398527010288 phosphorylation site [posttranslational modification] 398527010289 intermolecular recognition site; other site 398527010290 dimerization interface [polypeptide binding]; other site 398527010291 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527010292 DNA binding residues [nucleotide binding] 398527010293 dimerization interface [polypeptide binding]; other site 398527010294 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398527010295 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527010296 ATP binding site [chemical binding]; other site 398527010297 Mg2+ binding site [ion binding]; other site 398527010298 G-X-G motif; other site 398527010299 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398527010300 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 398527010301 FAD binding pocket [chemical binding]; other site 398527010302 FAD binding motif [chemical binding]; other site 398527010303 phosphate binding motif [ion binding]; other site 398527010304 beta-alpha-beta structure motif; other site 398527010305 NAD binding pocket [chemical binding]; other site 398527010306 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527010307 TM-ABC transporter signature motif; other site 398527010308 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527010309 TM-ABC transporter signature motif; other site 398527010310 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527010311 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527010312 Walker A/P-loop; other site 398527010313 ATP binding site [chemical binding]; other site 398527010314 Q-loop/lid; other site 398527010315 ABC transporter signature motif; other site 398527010316 Walker B; other site 398527010317 D-loop; other site 398527010318 H-loop/switch region; other site 398527010319 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527010320 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398527010321 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 398527010322 putative ligand binding site [chemical binding]; other site 398527010323 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527010324 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527010325 DNA binding site [nucleotide binding] 398527010326 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 398527010327 putative dimerization interface [polypeptide binding]; other site 398527010328 putative ligand binding site [chemical binding]; other site 398527010329 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 398527010330 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 398527010331 active site 398527010332 catalytic residues [active] 398527010333 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 398527010334 putative catalytic site [active] 398527010335 putative phosphate binding site [ion binding]; other site 398527010336 putative metal binding site [ion binding]; other site 398527010337 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527010338 Walker A motif; other site 398527010339 ATP binding site [chemical binding]; other site 398527010340 Walker B motif; other site 398527010341 arginine finger; other site 398527010342 Predicted dehydrogenase [General function prediction only]; Region: COG0579 398527010343 High potential iron-sulfur protein; Region: HIPIP; pfam01355 398527010344 citrate-proton symporter; Provisional; Region: PRK15075 398527010345 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527010346 putative substrate translocation pore; other site 398527010347 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398527010348 Amidase; Region: Amidase; cl11426 398527010349 Dienelactone hydrolase family; Region: DLH; pfam01738 398527010350 Nitronate monooxygenase; Region: NMO; pfam03060 398527010351 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 398527010352 FMN binding site [chemical binding]; other site 398527010353 substrate binding site [chemical binding]; other site 398527010354 putative catalytic residue [active] 398527010355 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 398527010356 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 398527010357 dimerization interface [polypeptide binding]; other site 398527010358 ligand binding site [chemical binding]; other site 398527010359 JmjC domain, hydroxylase; Region: JmjC; cl15814 398527010360 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398527010361 H-NS histone family; Region: Histone_HNS; pfam00816 398527010362 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527010363 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398527010364 Cation efflux family; Region: Cation_efflux; cl00316 398527010365 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527010366 Helix-turn-helix domains; Region: HTH; cl00088 398527010367 AsnC family; Region: AsnC_trans_reg; pfam01037 398527010368 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 398527010369 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527010370 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 398527010371 Predicted methyltransferases [General function prediction only]; Region: COG0313 398527010372 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 398527010373 Restriction endonuclease; Region: Mrr_cat; cl00516 398527010374 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 398527010375 dimer interface [polypeptide binding]; other site 398527010376 active site 398527010377 outer membrane lipoprotein; Provisional; Region: PRK11023 398527010378 BON domain; Region: BON; cl02771 398527010379 Cytochrome c; Region: Cytochrom_C; cl11414 398527010380 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398527010381 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527010382 dimerization interface [polypeptide binding]; other site 398527010383 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527010384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527010385 dimer interface [polypeptide binding]; other site 398527010386 putative CheW interface [polypeptide binding]; other site 398527010387 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527010388 metal binding site [ion binding]; metal-binding site 398527010389 active site 398527010390 I-site; other site 398527010391 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 398527010392 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398527010393 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527010394 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527010395 dimer interface [polypeptide binding]; other site 398527010396 putative CheW interface [polypeptide binding]; other site 398527010397 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 398527010398 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398527010399 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398527010400 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527010401 CutC family; Region: CutC; cl01218 398527010402 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 398527010403 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 398527010404 dimer interface [polypeptide binding]; other site 398527010405 PYR/PP interface [polypeptide binding]; other site 398527010406 TPP binding site [chemical binding]; other site 398527010407 substrate binding site [chemical binding]; other site 398527010408 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 398527010409 TPP-binding site [chemical binding]; other site 398527010410 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 398527010411 haemagglutination activity domain; Region: Haemagg_act; cl05436 398527010412 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527010413 Surface antigen; Region: Bac_surface_Ag; cl03097 398527010414 Ion channel; Region: Ion_trans_2; cl11596 398527010415 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 398527010416 putative substrate binding site [chemical binding]; other site 398527010417 putative ATP binding site [chemical binding]; other site 398527010418 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 398527010419 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 398527010420 dimerization interface [polypeptide binding]; other site 398527010421 putative active cleft [active] 398527010422 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527010423 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527010424 DNA binding site [nucleotide binding] 398527010425 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 398527010426 ligand binding site [chemical binding]; other site 398527010427 dimerization interface [polypeptide binding]; other site 398527010428 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527010429 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 398527010430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527010431 metal binding site [ion binding]; metal-binding site 398527010432 active site 398527010433 I-site; other site 398527010434 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 398527010435 Membrane transport protein; Region: Mem_trans; cl09117 398527010436 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527010437 trimer interface [polypeptide binding]; other site 398527010438 eyelet of channel; other site 398527010439 Helix-turn-helix domains; Region: HTH; cl00088 398527010440 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527010441 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527010442 putative effector binding pocket; other site 398527010443 dimerization interface [polypeptide binding]; other site 398527010444 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 398527010445 B12 binding site [chemical binding]; other site 398527010446 cobalt ligand [ion binding]; other site 398527010447 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 398527010448 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 398527010449 Walker A; other site 398527010450 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 398527010451 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 398527010452 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398527010453 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 398527010454 FMN binding site [chemical binding]; other site 398527010455 substrate binding site [chemical binding]; other site 398527010456 putative catalytic residue [active] 398527010457 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527010458 Helix-turn-helix domains; Region: HTH; cl00088 398527010459 AsnC family; Region: AsnC_trans_reg; pfam01037 398527010460 EamA-like transporter family; Region: EamA; cl01037 398527010461 EamA-like transporter family; Region: EamA; cl01037 398527010462 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527010463 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 398527010464 active site 398527010465 catalytic site [active] 398527010466 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 398527010467 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 398527010468 putative deacylase active site [active] 398527010469 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398527010470 active site 398527010471 catalytic residues [active] 398527010472 metal binding site [ion binding]; metal-binding site 398527010473 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 398527010474 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527010475 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527010476 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527010477 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398527010478 biotin synthase; Region: bioB; TIGR00433 398527010479 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527010480 FeS/SAM binding site; other site 398527010481 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 398527010482 AAA domain; Region: AAA_26; pfam13500 398527010483 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527010484 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527010485 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 398527010486 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527010487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527010488 catalytic residue [active] 398527010489 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 398527010490 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527010491 inhibitor-cofactor binding pocket; inhibition site 398527010492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527010493 catalytic residue [active] 398527010494 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398527010495 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 398527010496 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398527010497 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 398527010498 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398527010499 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398527010500 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398527010501 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398527010502 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398527010503 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398527010504 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398527010505 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 398527010506 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 398527010507 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 398527010508 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527010509 hypothetical protein; Provisional; Region: PRK01842 398527010510 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527010511 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527010512 active site 398527010513 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 398527010514 NADP binding site [chemical binding]; other site 398527010515 homodimer interface [polypeptide binding]; other site 398527010516 active site 398527010517 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 398527010518 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398527010519 dimer interface [polypeptide binding]; other site 398527010520 active site 398527010521 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 398527010522 active site clefts [active] 398527010523 zinc binding site [ion binding]; other site 398527010524 dimer interface [polypeptide binding]; other site 398527010525 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 398527010526 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 398527010527 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 398527010528 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398527010529 DNA binding residues [nucleotide binding] 398527010530 putative dimer interface [polypeptide binding]; other site 398527010531 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527010532 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 398527010533 NlpC/P60 family; Region: NLPC_P60; cl11438 398527010534 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 398527010535 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 398527010536 peptide binding site [polypeptide binding]; other site 398527010537 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 398527010538 intersubunit interface [polypeptide binding]; other site 398527010539 short chain dehydrogenase; Provisional; Region: PRK08251 398527010540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527010541 NAD(P) binding site [chemical binding]; other site 398527010542 active site 398527010543 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 398527010544 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398527010545 catalytic residues [active] 398527010546 hinge region; other site 398527010547 alpha helical domain; other site 398527010548 Sporulation related domain; Region: SPOR; cl10051 398527010549 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 398527010550 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 398527010551 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 398527010552 active site 398527010553 HIGH motif; other site 398527010554 KMSK motif region; other site 398527010555 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 398527010556 tRNA binding surface [nucleotide binding]; other site 398527010557 anticodon binding site; other site 398527010558 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 398527010559 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 398527010560 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 398527010561 substrate binding pocket [chemical binding]; other site 398527010562 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 398527010563 B12 binding site [chemical binding]; other site 398527010564 cobalt ligand [ion binding]; other site 398527010565 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 398527010566 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 398527010567 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 398527010568 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 398527010569 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 398527010570 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527010571 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 398527010572 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527010573 Helix-turn-helix domains; Region: HTH; cl00088 398527010574 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 398527010575 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527010576 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527010577 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 398527010578 putative ligand binding site [chemical binding]; other site 398527010579 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527010580 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 398527010581 substrate binding site [chemical binding]; other site 398527010582 oxyanion hole (OAH) forming residues; other site 398527010583 trimer interface [polypeptide binding]; other site 398527010584 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 398527010585 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 398527010586 dinuclear metal binding motif [ion binding]; other site 398527010587 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398527010588 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 398527010589 active site 398527010590 HIGH motif; other site 398527010591 nucleotide binding site [chemical binding]; other site 398527010592 Type III pantothenate kinase; Region: Pan_kinase; cl09130 398527010593 biotin--protein ligase; Provisional; Region: PRK06955 398527010594 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 398527010595 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 398527010596 Permease; Region: Permease; cl00510 398527010597 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 398527010598 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 398527010599 Walker A/P-loop; other site 398527010600 ATP binding site [chemical binding]; other site 398527010601 Q-loop/lid; other site 398527010602 ABC transporter signature motif; other site 398527010603 Walker B; other site 398527010604 D-loop; other site 398527010605 H-loop/switch region; other site 398527010606 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 398527010607 mce related protein; Region: MCE; pfam02470 398527010608 Protein of unknown function (DUF330); Region: DUF330; cl01135 398527010609 VanZ like family; Region: VanZ; cl01971 398527010610 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 398527010611 dimer interface [polypeptide binding]; other site 398527010612 [2Fe-2S] cluster binding site [ion binding]; other site 398527010613 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 398527010614 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 398527010615 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527010616 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 398527010617 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 398527010618 homodimer interface [polypeptide binding]; other site 398527010619 substrate-cofactor binding pocket; other site 398527010620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527010621 catalytic residue [active] 398527010622 Protein of unknown function (DUF493); Region: DUF493; cl01102 398527010623 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527010624 Helix-turn-helix domains; Region: HTH; cl00088 398527010625 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527010626 dimerization interface [polypeptide binding]; other site 398527010627 substrate binding pocket [chemical binding]; other site 398527010628 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 398527010629 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 398527010630 lipoyl synthase; Provisional; Region: PRK05481 398527010631 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527010632 FeS/SAM binding site; other site 398527010633 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 398527010634 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527010635 substrate binding pocket [chemical binding]; other site 398527010636 membrane-bound complex binding site; other site 398527010637 hinge residues; other site 398527010638 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 398527010639 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 398527010640 Walker A/P-loop; other site 398527010641 ATP binding site [chemical binding]; other site 398527010642 Q-loop/lid; other site 398527010643 ABC transporter signature motif; other site 398527010644 Walker B; other site 398527010645 D-loop; other site 398527010646 H-loop/switch region; other site 398527010647 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527010648 dimer interface [polypeptide binding]; other site 398527010649 conserved gate region; other site 398527010650 putative PBP binding loops; other site 398527010651 ABC-ATPase subunit interface; other site 398527010652 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 398527010653 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527010654 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 398527010655 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 398527010656 PhoU domain; Region: PhoU; pfam01895 398527010657 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398527010658 Helix-turn-helix domains; Region: HTH; cl00088 398527010659 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527010660 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 398527010661 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 398527010662 putative active site [active] 398527010663 catalytic site [active] 398527010664 putative metal binding site [ion binding]; other site 398527010665 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398527010666 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527010667 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527010668 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527010669 dimer interface [polypeptide binding]; other site 398527010670 conserved gate region; other site 398527010671 putative PBP binding loops; other site 398527010672 ABC-ATPase subunit interface; other site 398527010673 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527010674 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 398527010675 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527010676 dimer interface [polypeptide binding]; other site 398527010677 ABC-ATPase subunit interface; other site 398527010678 putative PBP binding loops; other site 398527010679 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 398527010680 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527010681 Walker A/P-loop; other site 398527010682 ATP binding site [chemical binding]; other site 398527010683 Q-loop/lid; other site 398527010684 ABC transporter signature motif; other site 398527010685 Walker B; other site 398527010686 D-loop; other site 398527010687 H-loop/switch region; other site 398527010688 TOBE domain; Region: TOBE_2; cl01440 398527010689 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 398527010690 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398527010691 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 398527010692 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527010693 dimer interface [polypeptide binding]; other site 398527010694 phosphorylation site [posttranslational modification] 398527010695 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527010696 ATP binding site [chemical binding]; other site 398527010697 Mg2+ binding site [ion binding]; other site 398527010698 G-X-G motif; other site 398527010699 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398527010700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527010701 active site 398527010702 phosphorylation site [posttranslational modification] 398527010703 intermolecular recognition site; other site 398527010704 dimerization interface [polypeptide binding]; other site 398527010705 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527010706 Walker A motif; other site 398527010707 ATP binding site [chemical binding]; other site 398527010708 Walker B motif; other site 398527010709 arginine finger; other site 398527010710 Helix-turn-helix domains; Region: HTH; cl00088 398527010711 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 398527010712 catalytic residues [active] 398527010713 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 398527010714 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 398527010715 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527010716 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 398527010717 Membrane fusogenic activity; Region: BMFP; cl01115 398527010718 Nitrogen regulatory protein P-II; Region: P-II; cl00412 398527010719 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398527010720 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 398527010721 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 398527010722 Glutamate-cysteine ligase; Region: GshA; pfam08886 398527010723 glutathione synthetase; Provisional; Region: PRK05246 398527010724 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 398527010725 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527010726 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 398527010727 active pocket/dimerization site; other site 398527010728 active site 398527010729 phosphorylation site [posttranslational modification] 398527010730 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 398527010731 dimerization domain swap beta strand [polypeptide binding]; other site 398527010732 regulatory protein interface [polypeptide binding]; other site 398527010733 active site 398527010734 regulatory phosphorylation site [posttranslational modification]; other site 398527010735 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 398527010736 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 398527010737 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 398527010738 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 398527010739 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 398527010740 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 398527010741 ATP binding site [chemical binding]; other site 398527010742 substrate interface [chemical binding]; other site 398527010743 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 398527010744 C-terminal peptidase (prc); Region: prc; TIGR00225 398527010745 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 398527010746 protein binding site [polypeptide binding]; other site 398527010747 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 398527010748 Catalytic dyad [active] 398527010749 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 398527010750 catalytic core [active] 398527010751 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 398527010752 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 398527010753 active site residue [active] 398527010754 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 398527010755 GSH binding site [chemical binding]; other site 398527010756 catalytic residues [active] 398527010757 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 398527010758 SecA binding site; other site 398527010759 Preprotein binding site; other site 398527010760 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 398527010761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527010762 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 398527010763 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 398527010764 putative ADP-ribose binding site [chemical binding]; other site 398527010765 putative active site [active] 398527010766 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 398527010767 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 398527010768 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398527010769 active site 398527010770 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527010771 S-adenosylmethionine binding site [chemical binding]; other site 398527010772 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 398527010773 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 398527010774 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 398527010775 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 398527010776 Cytochrome c; Region: Cytochrom_C; cl11414 398527010777 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527010778 ligand binding site [chemical binding]; other site 398527010779 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 398527010780 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 398527010781 Subunit I/III interface [polypeptide binding]; other site 398527010782 D-pathway; other site 398527010783 Subunit I/VIIc interface [polypeptide binding]; other site 398527010784 Subunit I/IV interface [polypeptide binding]; other site 398527010785 Subunit I/II interface [polypeptide binding]; other site 398527010786 Low-spin heme (heme a) binding site [chemical binding]; other site 398527010787 Subunit I/VIIa interface [polypeptide binding]; other site 398527010788 Subunit I/VIa interface [polypeptide binding]; other site 398527010789 Dimer interface; other site 398527010790 Putative water exit pathway; other site 398527010791 Binuclear center (heme a3/CuB) [ion binding]; other site 398527010792 K-pathway; other site 398527010793 Subunit I/Vb interface [polypeptide binding]; other site 398527010794 Putative proton exit pathway; other site 398527010795 Subunit I/VIb interface; other site 398527010796 Subunit I/VIc interface [polypeptide binding]; other site 398527010797 Electron transfer pathway; other site 398527010798 Subunit I/VIIIb interface [polypeptide binding]; other site 398527010799 Subunit I/VIIb interface [polypeptide binding]; other site 398527010800 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 398527010801 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 398527010802 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 398527010803 Subunit III/VIIa interface [polypeptide binding]; other site 398527010804 Phospholipid binding site [chemical binding]; other site 398527010805 Subunit I/III interface [polypeptide binding]; other site 398527010806 Subunit III/VIb interface [polypeptide binding]; other site 398527010807 Subunit III/VIa interface; other site 398527010808 Subunit III/Vb interface [polypeptide binding]; other site 398527010809 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 398527010810 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 398527010811 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527010812 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 398527010813 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 398527010814 UbiA prenyltransferase family; Region: UbiA; cl00337 398527010815 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 398527010816 Cu(I) binding site [ion binding]; other site 398527010817 YCII-related domain; Region: YCII; cl00999 398527010818 Cache domain; Region: Cache_2; cl07034 398527010819 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527010820 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527010821 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527010822 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527010823 dimer interface [polypeptide binding]; other site 398527010824 putative CheW interface [polypeptide binding]; other site 398527010825 NMT1-like family; Region: NMT1_2; cl15260 398527010826 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527010827 Helix-turn-helix domains; Region: HTH; cl00088 398527010828 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398527010829 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527010830 Coenzyme A binding pocket [chemical binding]; other site 398527010831 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398527010832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527010833 DNA-binding site [nucleotide binding]; DNA binding site 398527010834 UTRA domain; Region: UTRA; cl01230 398527010835 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 398527010836 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 398527010837 active site 398527010838 dimer interface [polypeptide binding]; other site 398527010839 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 398527010840 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 398527010841 dimer interface [polypeptide binding]; other site 398527010842 active site 398527010843 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 398527010844 dimer interface [polypeptide binding]; other site 398527010845 active site 398527010846 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 398527010847 HPr interaction site; other site 398527010848 glycerol kinase (GK) interaction site [polypeptide binding]; other site 398527010849 active site 398527010850 phosphorylation site [posttranslational modification] 398527010851 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 398527010852 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 398527010853 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 398527010854 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 398527010855 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 398527010856 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 398527010857 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 398527010858 active site turn [active] 398527010859 phosphorylation site [posttranslational modification] 398527010860 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 398527010861 active site turn [active] 398527010862 phosphorylation site [posttranslational modification] 398527010863 Domain of unknown function (DUF1996); Region: DUF1996; pfam09362 398527010864 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 398527010865 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398527010866 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398527010867 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 398527010868 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 398527010869 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 398527010870 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398527010871 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527010872 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527010873 DNA binding residues [nucleotide binding] 398527010874 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 398527010875 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527010876 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 398527010877 active site 398527010878 catalytic residues [active] 398527010879 metal binding site [ion binding]; metal-binding site 398527010880 glycosyl transferase family protein; Provisional; Region: PRK08136 398527010881 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398527010882 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527010883 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 398527010884 maleylacetoacetate isomerase; Region: maiA; TIGR01262 398527010885 C-terminal domain interface [polypeptide binding]; other site 398527010886 GSH binding site (G-site) [chemical binding]; other site 398527010887 putative dimer interface [polypeptide binding]; other site 398527010888 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 398527010889 dimer interface [polypeptide binding]; other site 398527010890 N-terminal domain interface [polypeptide binding]; other site 398527010891 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 398527010892 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 398527010893 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 398527010894 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 398527010895 P loop; other site 398527010896 GTP binding site [chemical binding]; other site 398527010897 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527010898 S-adenosylmethionine binding site [chemical binding]; other site 398527010899 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 398527010900 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 398527010901 active site 398527010902 (T/H)XGH motif; other site 398527010903 ferredoxin; Validated; Region: PRK07118 398527010904 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 398527010905 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527010906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527010907 homodimer interface [polypeptide binding]; other site 398527010908 catalytic residue [active] 398527010909 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 398527010910 putative active site [active] 398527010911 catalytic residue [active] 398527010912 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 398527010913 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 398527010914 5S rRNA interface [nucleotide binding]; other site 398527010915 CTC domain interface [polypeptide binding]; other site 398527010916 L16 interface [polypeptide binding]; other site 398527010917 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 398527010918 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 398527010919 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398527010920 active site 398527010921 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 398527010922 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 398527010923 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 398527010924 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527010925 TPR motif; other site 398527010926 binding surface 398527010927 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527010928 binding surface 398527010929 TPR motif; other site 398527010930 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 398527010931 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 398527010932 DNA binding site [nucleotide binding] 398527010933 catalytic residue [active] 398527010934 H2TH interface [polypeptide binding]; other site 398527010935 putative catalytic residues [active] 398527010936 turnover-facilitating residue; other site 398527010937 intercalation triad [nucleotide binding]; other site 398527010938 8OG recognition residue [nucleotide binding]; other site 398527010939 putative reading head residues; other site 398527010940 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 398527010941 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398527010942 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 398527010943 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398527010944 minor groove reading motif; other site 398527010945 helix-hairpin-helix signature motif; other site 398527010946 substrate binding pocket [chemical binding]; other site 398527010947 active site 398527010948 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 398527010949 DNA binding and oxoG recognition site [nucleotide binding] 398527010950 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 398527010951 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 398527010952 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 398527010953 HPr kinase/phosphorylase; Provisional; Region: PRK05428 398527010954 DRTGG domain; Region: DRTGG; cl12147 398527010955 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 398527010956 Hpr binding site; other site 398527010957 active site 398527010958 homohexamer subunit interaction site [polypeptide binding]; other site 398527010959 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 398527010960 active site 398527010961 phosphorylation site [posttranslational modification] 398527010962 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 398527010963 30S subunit binding site; other site 398527010964 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 398527010965 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 398527010966 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 398527010967 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 398527010968 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 398527010969 Walker A/P-loop; other site 398527010970 ATP binding site [chemical binding]; other site 398527010971 Q-loop/lid; other site 398527010972 ABC transporter signature motif; other site 398527010973 Walker B; other site 398527010974 D-loop; other site 398527010975 H-loop/switch region; other site 398527010976 OstA-like protein; Region: OstA; cl00844 398527010977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 398527010978 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 398527010979 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 398527010980 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527010981 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 398527010982 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 398527010983 putative active site [active] 398527010984 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 398527010985 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398527010986 putative cation:proton antiport protein; Provisional; Region: PRK10669 398527010987 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 398527010988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527010989 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 398527010990 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398527010991 active site 398527010992 LysE type translocator; Region: LysE; cl00565 398527010993 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 398527010994 nudix motif; other site 398527010995 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 398527010996 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 398527010997 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 398527010998 putative active site [active] 398527010999 putative substrate binding site [chemical binding]; other site 398527011000 putative cosubstrate binding site; other site 398527011001 catalytic site [active] 398527011002 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 398527011003 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 398527011004 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 398527011005 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398527011006 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 398527011007 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 398527011008 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 398527011009 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 398527011010 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011011 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527011012 putative substrate translocation pore; other site 398527011013 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 398527011014 dimer interface [polypeptide binding]; other site 398527011015 ssDNA binding site [nucleotide binding]; other site 398527011016 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398527011017 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 398527011018 putative active site [active] 398527011019 putative catalytic site [active] 398527011020 benzoate transport; Region: 2A0115; TIGR00895 398527011021 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011022 putative substrate translocation pore; other site 398527011023 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011024 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 398527011025 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527011026 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527011027 active site 398527011028 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527011029 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527011030 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398527011031 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527011032 DNA-binding site [nucleotide binding]; DNA binding site 398527011033 UTRA domain; Region: UTRA; cl01230 398527011034 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 398527011035 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 398527011036 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398527011037 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 398527011038 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527011039 dimerization interface [polypeptide binding]; other site 398527011040 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527011041 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527011042 dimer interface [polypeptide binding]; other site 398527011043 putative CheW interface [polypeptide binding]; other site 398527011044 Cytochrome c; Region: Cytochrom_C; cl11414 398527011045 Cytochrome c; Region: Cytochrom_C; cl11414 398527011046 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 398527011047 Low-spin heme binding site [chemical binding]; other site 398527011048 Subunit I/II interface [polypeptide binding]; other site 398527011049 Putative Q-pathway; other site 398527011050 Putative D-pathway homolog; other site 398527011051 Putative alternate electron transfer pathway; other site 398527011052 Putative water exit pathway; other site 398527011053 Binuclear center (active site) [active] 398527011054 Putative K-pathway homolog; other site 398527011055 Putative proton exit pathway; other site 398527011056 Subunit I/IIa interface [polypeptide binding]; other site 398527011057 Electron transfer pathway; other site 398527011058 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 398527011059 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398527011060 Cytochrome c; Region: Cytochrom_C; cl11414 398527011061 Cytochrome c; Region: Cytochrom_C; cl11414 398527011062 Cytochrome c; Region: Cytochrom_C; cl11414 398527011063 Helix-turn-helix domains; Region: HTH; cl00088 398527011064 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527011065 dimerization interface [polypeptide binding]; other site 398527011066 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527011067 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011068 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527011069 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527011070 active site 398527011071 phosphorylation site [posttranslational modification] 398527011072 intermolecular recognition site; other site 398527011073 dimerization interface [polypeptide binding]; other site 398527011074 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527011075 DNA binding residues [nucleotide binding] 398527011076 dimerization interface [polypeptide binding]; other site 398527011077 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527011078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527011079 active site 398527011080 phosphorylation site [posttranslational modification] 398527011081 intermolecular recognition site; other site 398527011082 dimerization interface [polypeptide binding]; other site 398527011083 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527011084 DNA binding residues [nucleotide binding] 398527011085 dimerization interface [polypeptide binding]; other site 398527011086 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527011087 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527011088 active site 398527011089 phosphorylation site [posttranslational modification] 398527011090 intermolecular recognition site; other site 398527011091 dimerization interface [polypeptide binding]; other site 398527011092 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527011093 DNA binding residues [nucleotide binding] 398527011094 dimerization interface [polypeptide binding]; other site 398527011095 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 398527011096 amphipathic channel; other site 398527011097 Asn-Pro-Ala signature motifs; other site 398527011098 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527011099 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527011100 substrate binding pocket [chemical binding]; other site 398527011101 membrane-bound complex binding site; other site 398527011102 hinge residues; other site 398527011103 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527011104 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527011105 substrate binding pocket [chemical binding]; other site 398527011106 membrane-bound complex binding site; other site 398527011107 hinge residues; other site 398527011108 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527011109 PAS domain; Region: PAS_9; pfam13426 398527011110 putative active site [active] 398527011111 heme pocket [chemical binding]; other site 398527011112 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527011113 dimer interface [polypeptide binding]; other site 398527011114 phosphorylation site [posttranslational modification] 398527011115 histidine kinase; Provisional; Region: PRK13557 398527011116 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527011117 ATP binding site [chemical binding]; other site 398527011118 Mg2+ binding site [ion binding]; other site 398527011119 G-X-G motif; other site 398527011120 Response regulator receiver domain; Region: Response_reg; pfam00072 398527011121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527011122 active site 398527011123 phosphorylation site [posttranslational modification] 398527011124 intermolecular recognition site; other site 398527011125 dimerization interface [polypeptide binding]; other site 398527011126 CHRD domain; Region: CHRD; cl06473 398527011127 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398527011128 EcsC protein family; Region: EcsC; pfam12787 398527011129 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527011130 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011131 putative substrate translocation pore; other site 398527011132 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011133 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398527011134 Helix-turn-helix domains; Region: HTH; cl00088 398527011135 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 398527011136 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 398527011137 dimer interface [polypeptide binding]; other site 398527011138 active site 398527011139 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398527011140 substrate binding site [chemical binding]; other site 398527011141 catalytic residue [active] 398527011142 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398527011143 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398527011144 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398527011145 putative active site [active] 398527011146 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 398527011147 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 398527011148 active site 398527011149 putative substrate binding pocket [chemical binding]; other site 398527011150 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527011151 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 398527011152 homotrimer interaction site [polypeptide binding]; other site 398527011153 putative active site [active] 398527011154 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 398527011155 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 398527011156 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 398527011157 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 398527011158 threonine dehydratase; Reviewed; Region: PRK09224 398527011159 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 398527011160 tetramer interface [polypeptide binding]; other site 398527011161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527011162 catalytic residue [active] 398527011163 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 398527011164 putative Ile/Val binding site [chemical binding]; other site 398527011165 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 398527011166 putative Ile/Val binding site [chemical binding]; other site 398527011167 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 398527011168 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398527011169 FAD binding domain; Region: FAD_binding_4; pfam01565 398527011170 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 398527011171 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 398527011172 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398527011173 Cysteine-rich domain; Region: CCG; pfam02754 398527011174 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 398527011175 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 398527011176 nucleotide binding site/active site [active] 398527011177 HIT family signature motif; other site 398527011178 catalytic residue [active] 398527011179 Protein of unknown function (DUF971); Region: DUF971; cl01414 398527011180 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 398527011181 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527011182 S-adenosylmethionine binding site [chemical binding]; other site 398527011183 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527011184 Tim44-like domain; Region: Tim44; cl09208 398527011185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 398527011186 SCP-2 sterol transfer family; Region: SCP2; cl01225 398527011187 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527011188 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527011189 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 398527011190 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 398527011191 Protein of unknown function (DUF502); Region: DUF502; cl01107 398527011192 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 398527011193 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 398527011194 dimer interface [polypeptide binding]; other site 398527011195 anticodon binding site; other site 398527011196 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 398527011197 homodimer interface [polypeptide binding]; other site 398527011198 motif 1; other site 398527011199 active site 398527011200 motif 2; other site 398527011201 GAD domain; Region: GAD; pfam02938 398527011202 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 398527011203 motif 3; other site 398527011204 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 398527011205 nudix motif; other site 398527011206 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 398527011207 putative active site [active] 398527011208 catalytic site [active] 398527011209 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 398527011210 PLD-like domain; Region: PLDc_2; pfam13091 398527011211 putative active site [active] 398527011212 catalytic site [active] 398527011213 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527011214 Helix-turn-helix domains; Region: HTH; cl00088 398527011215 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398527011216 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398527011217 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 398527011218 FAD binding site [chemical binding]; other site 398527011219 substrate binding site [chemical binding]; other site 398527011220 catalytic residues [active] 398527011221 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398527011222 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 398527011223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527011224 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398527011225 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398527011226 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527011227 substrate binding site [chemical binding]; other site 398527011228 oxyanion hole (OAH) forming residues; other site 398527011229 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 398527011230 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398527011231 dimer interface [polypeptide binding]; other site 398527011232 active site 398527011233 enoyl-CoA hydratase; Provisional; Region: PRK06688 398527011234 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527011235 substrate binding site [chemical binding]; other site 398527011236 oxyanion hole (OAH) forming residues; other site 398527011237 trimer interface [polypeptide binding]; other site 398527011238 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 398527011239 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; cl09869 398527011240 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527011241 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 398527011242 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527011243 putative active site [active] 398527011244 heme pocket [chemical binding]; other site 398527011245 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527011246 metal binding site [ion binding]; metal-binding site 398527011247 active site 398527011248 I-site; other site 398527011249 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527011250 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527011251 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 398527011252 C-terminal domain interface [polypeptide binding]; other site 398527011253 GSH binding site (G-site) [chemical binding]; other site 398527011254 dimer interface [polypeptide binding]; other site 398527011255 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398527011256 substrate binding pocket (H-site) [chemical binding]; other site 398527011257 N-terminal domain interface [polypeptide binding]; other site 398527011258 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527011259 Helix-turn-helix domains; Region: HTH; cl00088 398527011260 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527011261 dimerization interface [polypeptide binding]; other site 398527011262 substrate binding pocket [chemical binding]; other site 398527011263 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 398527011264 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 398527011265 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 398527011266 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 398527011267 Walker A/P-loop; other site 398527011268 ATP binding site [chemical binding]; other site 398527011269 Q-loop/lid; other site 398527011270 ABC transporter signature motif; other site 398527011271 Walker B; other site 398527011272 D-loop; other site 398527011273 H-loop/switch region; other site 398527011274 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 398527011275 Substrate binding site; other site 398527011276 metal-binding site 398527011277 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527011278 Phosphotransferase enzyme family; Region: APH; pfam01636 398527011279 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 398527011280 Organic solvent tolerance protein; Region: OstA_C; pfam04453 398527011281 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 398527011282 SurA N-terminal domain; Region: SurA_N_3; cl07813 398527011283 PPIC-type PPIASE domain; Region: Rotamase; cl08278 398527011284 PPIC-type PPIASE domain; Region: Rotamase; cl08278 398527011285 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 398527011286 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 398527011287 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527011288 EamA-like transporter family; Region: EamA; cl01037 398527011289 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 398527011290 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527011291 trimer interface [polypeptide binding]; other site 398527011292 eyelet of channel; other site 398527011293 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527011294 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 398527011295 dimer interface [polypeptide binding]; other site 398527011296 active site 398527011297 metal binding site [ion binding]; metal-binding site 398527011298 glutathione binding site [chemical binding]; other site 398527011299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 398527011300 Protein of unknown function DUF45; Region: DUF45; cl00636 398527011301 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398527011302 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398527011303 putative acyl-acceptor binding pocket; other site 398527011304 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 398527011305 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527011306 active site 398527011307 motif I; other site 398527011308 motif II; other site 398527011309 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 398527011310 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 398527011311 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 398527011312 dimer interface [polypeptide binding]; other site 398527011313 motif 1; other site 398527011314 active site 398527011315 motif 2; other site 398527011316 motif 3; other site 398527011317 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 398527011318 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 398527011319 active site 398527011320 FMN binding site [chemical binding]; other site 398527011321 substrate binding site [chemical binding]; other site 398527011322 3Fe-4S cluster binding site [ion binding]; other site 398527011323 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 398527011324 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 398527011325 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 398527011326 nudix motif; other site 398527011327 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 398527011328 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 398527011329 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398527011330 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 398527011331 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 398527011332 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 398527011333 Helix-turn-helix domains; Region: HTH; cl00088 398527011334 WYL domain; Region: WYL; cl14852 398527011335 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 398527011336 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527011337 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 398527011338 THUMP domain; Region: THUMP; cl12076 398527011339 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527011340 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 398527011341 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 398527011342 generic binding surface II; other site 398527011343 ssDNA binding site; other site 398527011344 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527011345 ATP binding site [chemical binding]; other site 398527011346 putative Mg++ binding site [ion binding]; other site 398527011347 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527011348 nucleotide binding region [chemical binding]; other site 398527011349 ATP-binding site [chemical binding]; other site 398527011350 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 398527011351 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 398527011352 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 398527011353 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 398527011354 Preprotein translocase subunit; Region: YajC; cl00806 398527011355 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 398527011356 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 398527011357 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 398527011358 Protein export membrane protein; Region: SecD_SecF; cl14618 398527011359 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 398527011360 Protein export membrane protein; Region: SecD_SecF; cl14618 398527011361 citrate-proton symporter; Provisional; Region: PRK15075 398527011362 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011363 putative substrate translocation pore; other site 398527011364 YceI-like domain; Region: YceI; cl01001 398527011365 YceI-like domain; Region: YceI; cl01001 398527011366 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398527011367 Paraquat-inducible protein A; Region: PqiA; pfam04403 398527011368 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 398527011369 Paraquat-inducible protein A; Region: PqiA; pfam04403 398527011370 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 398527011371 mce related protein; Region: MCE; pfam02470 398527011372 mce related protein; Region: MCE; pfam02470 398527011373 mce related protein; Region: MCE; pfam02470 398527011374 Protein of unknown function (DUF330); Region: DUF330; cl01135 398527011375 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527011376 Helix-turn-helix domains; Region: HTH; cl00088 398527011377 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 398527011378 dimerization interface [polypeptide binding]; other site 398527011379 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 398527011380 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 398527011381 tetramer interface [polypeptide binding]; other site 398527011382 heme binding pocket [chemical binding]; other site 398527011383 NADPH binding site [chemical binding]; other site 398527011384 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 398527011385 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 398527011386 dimerization interface [polypeptide binding]; other site 398527011387 DPS ferroxidase diiron center [ion binding]; other site 398527011388 ion pore; other site 398527011389 UbiA prenyltransferase family; Region: UbiA; cl00337 398527011390 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 398527011391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527011392 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 398527011393 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398527011394 catalytic residue [active] 398527011395 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 398527011396 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 398527011397 Cysteine-rich domain; Region: CCG; pfam02754 398527011398 Cysteine-rich domain; Region: CCG; pfam02754 398527011399 FAD binding domain; Region: FAD_binding_4; pfam01565 398527011400 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 398527011401 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 398527011402 FAD binding domain; Region: FAD_binding_4; pfam01565 398527011403 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 398527011404 FAD binding domain; Region: FAD_binding_4; pfam01565 398527011405 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 398527011406 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527011407 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 398527011408 NeuB family; Region: NeuB; cl00496 398527011409 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398527011410 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 398527011411 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 398527011412 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398527011413 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 398527011414 putative active site [active] 398527011415 catalytic triad [active] 398527011416 dimer interface [polypeptide binding]; other site 398527011417 TIGR02099 family protein; Region: TIGR02099 398527011418 AsmA-like C-terminal region; Region: AsmA_2; cl15864 398527011419 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 398527011420 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398527011421 metal binding triad; other site 398527011422 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398527011423 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398527011424 metal binding triad; other site 398527011425 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 398527011426 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 398527011427 Walker A/P-loop; other site 398527011428 ATP binding site [chemical binding]; other site 398527011429 Q-loop/lid; other site 398527011430 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 398527011431 ABC transporter signature motif; other site 398527011432 Walker B; other site 398527011433 D-loop; other site 398527011434 H-loop/switch region; other site 398527011435 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 398527011436 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 398527011437 Helix-turn-helix domains; Region: HTH; cl00088 398527011438 ferrochelatase; Reviewed; Region: hemH; PRK00035 398527011439 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 398527011440 C-terminal domain interface [polypeptide binding]; other site 398527011441 active site 398527011442 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 398527011443 active site 398527011444 N-terminal domain interface [polypeptide binding]; other site 398527011445 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 398527011446 RNA binding surface [nucleotide binding]; other site 398527011447 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 398527011448 dimer interface [polypeptide binding]; other site 398527011449 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 398527011450 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 398527011451 chaperone protein DnaJ; Provisional; Region: PRK10767 398527011452 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 398527011453 HSP70 interaction site [polypeptide binding]; other site 398527011454 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 398527011455 Zn binding sites [ion binding]; other site 398527011456 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 398527011457 dimer interface [polypeptide binding]; other site 398527011458 chorismate binding enzyme; Region: Chorismate_bind; cl10555 398527011459 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 398527011460 substrate-cofactor binding pocket; other site 398527011461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527011462 catalytic residue [active] 398527011463 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 398527011464 oligomerization interface [polypeptide binding]; other site 398527011465 active site 398527011466 metal binding site [ion binding]; metal-binding site 398527011467 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 398527011468 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 398527011469 Substrate-binding site [chemical binding]; other site 398527011470 Substrate specificity [chemical binding]; other site 398527011471 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 398527011472 catalytic center binding site [active] 398527011473 ATP binding site [chemical binding]; other site 398527011474 poly(A) polymerase; Region: pcnB; TIGR01942 398527011475 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398527011476 active site 398527011477 NTP binding site [chemical binding]; other site 398527011478 metal binding triad [ion binding]; metal-binding site 398527011479 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398527011480 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 398527011481 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 398527011482 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527011483 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527011484 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 398527011485 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398527011486 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 398527011487 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 398527011488 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 398527011489 dimerization interface [polypeptide binding]; other site 398527011490 putative ATP binding site [chemical binding]; other site 398527011491 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527011492 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 398527011493 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 398527011494 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527011495 ATP binding site [chemical binding]; other site 398527011496 Mg2+ binding site [ion binding]; other site 398527011497 G-X-G motif; other site 398527011498 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 398527011499 ATP binding site [chemical binding]; other site 398527011500 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 398527011501 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398527011502 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398527011503 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 398527011504 Peptidase family C69; Region: Peptidase_C69; pfam03577 398527011505 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527011506 trimer interface [polypeptide binding]; other site 398527011507 eyelet of channel; other site 398527011508 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 398527011509 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 398527011510 Tetratricopeptide repeat; Region: TPR_6; pfam13174 398527011511 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398527011512 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527011513 ligand binding site [chemical binding]; other site 398527011514 translocation protein TolB; Provisional; Region: tolB; PRK02889 398527011515 TolB amino-terminal domain; Region: TolB_N; cl00639 398527011516 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398527011517 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398527011518 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398527011519 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398527011520 TolA protein; Region: tolA_full; TIGR02794 398527011521 Gram-negative bacterial tonB protein; Region: TonB; cl10048 398527011522 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 398527011523 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398527011524 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398527011525 active site 398527011526 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 398527011527 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398527011528 putative NAD(P) binding site [chemical binding]; other site 398527011529 homodimer interface [polypeptide binding]; other site 398527011530 homotetramer interface [polypeptide binding]; other site 398527011531 active site 398527011532 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 398527011533 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 398527011534 dimer interface [polypeptide binding]; other site 398527011535 active site 398527011536 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398527011537 folate binding site [chemical binding]; other site 398527011538 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 398527011539 ATP cone domain; Region: ATP-cone; pfam03477 398527011540 Type II transport protein GspH; Region: GspH; pfam12019 398527011541 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 398527011542 PilX N-terminal; Region: PilX_N; pfam14341 398527011543 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 398527011544 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 398527011545 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 398527011546 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 398527011547 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398527011548 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 398527011549 dimer interface [polypeptide binding]; other site 398527011550 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398527011551 catalytic triad [active] 398527011552 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 398527011553 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527011554 FAD binding site [chemical binding]; other site 398527011555 substrate binding pocket [chemical binding]; other site 398527011556 catalytic base [active] 398527011557 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527011558 Helix-turn-helix domains; Region: HTH; cl00088 398527011559 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527011560 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 398527011561 benzoate transport; Region: 2A0115; TIGR00895 398527011562 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011563 putative substrate translocation pore; other site 398527011564 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011565 putative substrate translocation pore; other site 398527011566 Cupin domain; Region: Cupin_2; cl09118 398527011567 fumarylacetoacetase; Region: PLN02856 398527011568 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 398527011569 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527011570 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398527011571 MULE transposase domain; Region: MULE; pfam10551 398527011572 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011573 putative substrate translocation pore; other site 398527011574 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398527011575 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011576 putative substrate translocation pore; other site 398527011577 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527011578 substrate binding site [chemical binding]; other site 398527011579 oxyanion hole (OAH) forming residues; other site 398527011580 trimer interface [polypeptide binding]; other site 398527011581 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398527011582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527011583 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 398527011584 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 398527011585 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 398527011586 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 398527011587 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 398527011588 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 398527011589 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 398527011590 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 398527011591 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 398527011592 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 398527011593 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527011594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527011595 homodimer interface [polypeptide binding]; other site 398527011596 catalytic residue [active] 398527011597 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 398527011598 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527011599 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527011600 catalytic residue [active] 398527011601 major facilitator superfamily transporter; Provisional; Region: PRK05122 398527011602 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 398527011603 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527011604 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527011605 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 398527011606 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 398527011607 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527011608 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527011609 XdhC Rossmann domain; Region: XdhC_C; pfam13478 398527011610 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527011611 Helix-turn-helix domains; Region: HTH; cl00088 398527011612 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 398527011613 putative substrate binding pocket [chemical binding]; other site 398527011614 putative dimerization interface [polypeptide binding]; other site 398527011615 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 398527011616 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398527011617 putative catalytic residue [active] 398527011618 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 398527011619 NMT1-like family; Region: NMT1_2; cl15260 398527011620 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398527011621 LysE type translocator; Region: LysE; cl00565 398527011622 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527011623 Helix-turn-helix domains; Region: HTH; cl00088 398527011624 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 398527011625 putative dimerization interface [polypeptide binding]; other site 398527011626 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398527011627 active site 398527011628 catalytic residues [active] 398527011629 metal binding site [ion binding]; metal-binding site 398527011630 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527011631 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527011632 benzoate transport; Region: 2A0115; TIGR00895 398527011633 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011634 putative substrate translocation pore; other site 398527011635 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527011636 putative substrate translocation pore; other site 398527011637 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527011638 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 398527011639 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 398527011640 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 398527011641 active site 398527011642 GDP-Mannose binding site [chemical binding]; other site 398527011643 dimer interface [polypeptide binding]; other site 398527011644 modified nudix motif 398527011645 metal binding site [ion binding]; metal-binding site 398527011646 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527011647 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398527011648 conserved cys residue [active] 398527011649 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 398527011650 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 398527011651 Substrate binding site; other site 398527011652 Cupin domain; Region: Cupin_2; cl09118 398527011653 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 398527011654 Bacterial sugar transferase; Region: Bac_transf; cl00939 398527011655 polysaccharide export protein Wza; Provisional; Region: PRK15078 398527011656 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398527011657 SLBB domain; Region: SLBB; pfam10531 398527011658 tyrosine kinase; Provisional; Region: PRK11519 398527011659 Chain length determinant protein; Region: Wzz; cl15801 398527011660 Chain length determinant protein; Region: Wzz; cl15801 398527011661 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 398527011662 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 398527011663 NADP-binding site; other site 398527011664 homotetramer interface [polypeptide binding]; other site 398527011665 substrate binding site [chemical binding]; other site 398527011666 homodimer interface [polypeptide binding]; other site 398527011667 active site 398527011668 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 398527011669 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 398527011670 NADP binding site [chemical binding]; other site 398527011671 active site 398527011672 putative substrate binding site [chemical binding]; other site 398527011673 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527011674 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 398527011675 putative glycosyl transferase; Provisional; Region: PRK10307 398527011676 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 398527011677 putative acyl transferase; Provisional; Region: PRK10502 398527011678 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 398527011679 putative trimer interface [polypeptide binding]; other site 398527011680 putative active site [active] 398527011681 putative substrate binding site [chemical binding]; other site 398527011682 putative CoA binding site [chemical binding]; other site 398527011683 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398527011684 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527011685 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527011686 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 398527011687 putative ADP-binding pocket [chemical binding]; other site 398527011688 OpgC protein; Region: OpgC_C; cl00792 398527011689 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398527011690 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527011691 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527011692 colanic acid exporter; Provisional; Region: PRK10459 398527011693 MatE; Region: MatE; cl10513 398527011694 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527011695 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 398527011696 hemY protein; Region: hemY_coli; TIGR00540 398527011697 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 398527011698 Cl- selectivity filter; other site 398527011699 Cl- binding residues [ion binding]; other site 398527011700 pore gating glutamate residue; other site 398527011701 FOG: CBS domain [General function prediction only]; Region: COG0517 398527011702 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 398527011703 Helix-turn-helix domains; Region: HTH; cl00088 398527011704 Helix-turn-helix domains; Region: HTH; cl00088 398527011705 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 398527011706 HPP family; Region: HPP; pfam04982 398527011707 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 398527011708 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 398527011709 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527011710 S-adenosylmethionine binding site [chemical binding]; other site 398527011711 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527011712 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527011713 Helix-turn-helix domain; Region: HTH_18; pfam12833 398527011714 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527011715 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527011716 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 398527011717 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 398527011718 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 398527011719 tyrosine kinase; Provisional; Region: PRK11519 398527011720 Chain length determinant protein; Region: Wzz; cl15801 398527011721 Chain length determinant protein; Region: Wzz; cl15801 398527011722 Chain length determinant protein; Region: Wzz; cl15801 398527011723 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527011724 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398527011725 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 398527011726 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527011727 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527011728 MatE; Region: MatE; cl10513 398527011729 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 398527011730 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527011731 active site 398527011732 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 398527011733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527011734 UDP-galactopyranose mutase; Region: GLF; pfam03275 398527011735 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 398527011736 putative active site [active] 398527011737 putative metal binding site [ion binding]; other site 398527011738 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527011739 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 398527011740 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398527011741 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527011742 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527011743 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 398527011744 Cupin domain; Region: Cupin_2; cl09118 398527011745 Helix-turn-helix domain; Region: HTH_18; pfam12833 398527011746 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 398527011747 oligomerisation interface [polypeptide binding]; other site 398527011748 mobile loop; other site 398527011749 roof hairpin; other site 398527011750 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 398527011751 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 398527011752 ring oligomerisation interface [polypeptide binding]; other site 398527011753 ATP/Mg binding site [chemical binding]; other site 398527011754 stacking interactions; other site 398527011755 hinge regions; other site 398527011756 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 398527011757 dimer interface [polypeptide binding]; other site 398527011758 substrate binding site [chemical binding]; other site 398527011759 ATP binding site [chemical binding]; other site 398527011760 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 398527011761 Rubredoxin; Region: Rubredoxin; pfam00301 398527011762 iron binding site [ion binding]; other site 398527011763 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 398527011764 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 398527011765 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398527011766 active site 398527011767 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 398527011768 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398527011769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527011770 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 398527011771 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 398527011772 Probable transposase; Region: OrfB_IS605; pfam01385 398527011773 dihydroorotase; Provisional; Region: PRK07627 398527011774 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527011775 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 398527011776 active site 398527011777 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398527011778 putative acyl-acceptor binding pocket; other site 398527011779 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 398527011780 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 398527011781 active site 398527011782 metal binding site [ion binding]; metal-binding site 398527011783 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 398527011784 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 398527011785 NADP-binding site; other site 398527011786 homotetramer interface [polypeptide binding]; other site 398527011787 substrate binding site [chemical binding]; other site 398527011788 homodimer interface [polypeptide binding]; other site 398527011789 active site 398527011790 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 398527011791 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 398527011792 NAD binding site [chemical binding]; other site 398527011793 substrate binding site [chemical binding]; other site 398527011794 homodimer interface [polypeptide binding]; other site 398527011795 active site 398527011796 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 398527011797 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 398527011798 substrate binding site; other site 398527011799 tetramer interface; other site 398527011800 Cupin domain; Region: Cupin_2; cl09118 398527011801 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 398527011802 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 398527011803 NADP binding site [chemical binding]; other site 398527011804 active site 398527011805 putative substrate binding site [chemical binding]; other site 398527011806 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 398527011807 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 398527011808 Ligand binding site; other site 398527011809 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 398527011810 Probable Catalytic site; other site 398527011811 metal-binding site 398527011812 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398527011813 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 398527011814 Probable Catalytic site; other site 398527011815 metal-binding site 398527011816 ABC-2 type transporter; Region: ABC2_membrane; cl11417 398527011817 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398527011818 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527011819 active site 398527011820 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527011821 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 398527011822 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 398527011823 Walker A/P-loop; other site 398527011824 ATP binding site [chemical binding]; other site 398527011825 Q-loop/lid; other site 398527011826 ABC transporter signature motif; other site 398527011827 Walker B; other site 398527011828 D-loop; other site 398527011829 H-loop/switch region; other site 398527011830 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 398527011831 putative carbohydrate binding site [chemical binding]; other site 398527011832 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527011833 Ezrin/radixin/moesin family; Region: ERM; pfam00769 398527011834 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 398527011835 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527011836 putative ADP-binding pocket [chemical binding]; other site 398527011837 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 398527011838 active site 398527011839 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 398527011840 homodimer interface [polypeptide binding]; other site 398527011841 OpgC protein; Region: OpgC_C; cl00792 398527011842 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398527011843 GtrA-like protein; Region: GtrA; cl00971 398527011844 hypothetical protein; Provisional; Region: PRK07233 398527011845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527011846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527011847 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 398527011848 NAD(P) binding site [chemical binding]; other site 398527011849 active site 398527011850 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 398527011851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527011852 NAD(P) binding site [chemical binding]; other site 398527011853 active site 398527011854 FAD binding domain; Region: FAD_binding_4; pfam01565 398527011855 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 398527011856 hypothetical protein; Validated; Region: PRK08238 398527011857 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527011858 UbiA prenyltransferase family; Region: UbiA; cl00337 398527011859 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398527011860 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527011861 active site 398527011862 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527011863 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398527011864 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 398527011865 putative NAD(P) binding site [chemical binding]; other site 398527011866 active site 398527011867 putative substrate binding site [chemical binding]; other site 398527011868 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 398527011869 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 398527011870 Mg++ binding site [ion binding]; other site 398527011871 putative catalytic motif [active] 398527011872 putative substrate binding site [chemical binding]; other site 398527011873 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 398527011874 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398527011875 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 398527011876 NAD(P) binding site [chemical binding]; other site 398527011877 homodimer interface [polypeptide binding]; other site 398527011878 substrate binding site [chemical binding]; other site 398527011879 active site 398527011880 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 398527011881 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 398527011882 Mg++ binding site [ion binding]; other site 398527011883 putative catalytic motif [active] 398527011884 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 398527011885 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 398527011886 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527011887 dimerization interface [polypeptide binding]; other site 398527011888 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527011889 dimer interface [polypeptide binding]; other site 398527011890 putative CheW interface [polypeptide binding]; other site 398527011891 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398527011892 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527011893 ligand binding site [chemical binding]; other site 398527011894 flexible hinge region; other site 398527011895 Helix-turn-helix domains; Region: HTH; cl00088 398527011896 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398527011897 putative active site [active] 398527011898 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 398527011899 putative ribose interaction site [chemical binding]; other site 398527011900 putative ADP binding site [chemical binding]; other site 398527011901 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 398527011902 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 398527011903 dimerization interface [polypeptide binding]; other site 398527011904 putative active cleft [active] 398527011905 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527011906 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 398527011907 Bacterial sugar transferase; Region: Bac_transf; cl00939 398527011908 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527011909 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527011910 Walker A/P-loop; other site 398527011911 ATP binding site [chemical binding]; other site 398527011912 Q-loop/lid; other site 398527011913 ABC transporter signature motif; other site 398527011914 Walker B; other site 398527011915 D-loop; other site 398527011916 H-loop/switch region; other site 398527011917 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527011918 TM-ABC transporter signature motif; other site 398527011919 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527011920 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527011921 Walker A/P-loop; other site 398527011922 ATP binding site [chemical binding]; other site 398527011923 Q-loop/lid; other site 398527011924 ABC transporter signature motif; other site 398527011925 Walker B; other site 398527011926 D-loop; other site 398527011927 H-loop/switch region; other site 398527011928 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527011929 TM-ABC transporter signature motif; other site 398527011930 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527011931 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 398527011932 putative ligand binding site [chemical binding]; other site 398527011933 UDP-glucose 4-epimerase; Region: PLN02240 398527011934 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 398527011935 NAD binding site [chemical binding]; other site 398527011936 homodimer interface [polypeptide binding]; other site 398527011937 active site 398527011938 substrate binding site [chemical binding]; other site 398527011939 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 398527011940 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527011941 putative ADP-binding pocket [chemical binding]; other site 398527011942 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398527011943 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527011944 active site 398527011945 MatE; Region: MatE; cl10513 398527011946 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 398527011947 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 398527011948 active site 398527011949 substrate binding site [chemical binding]; other site 398527011950 metal binding site [ion binding]; metal-binding site 398527011951 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398527011952 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398527011953 putative active site [active] 398527011954 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 398527011955 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 398527011956 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 398527011957 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527011958 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527011959 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 398527011960 UreF; Region: UreF; pfam01730 398527011961 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 398527011962 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 398527011963 dimer interface [polypeptide binding]; other site 398527011964 catalytic residues [active] 398527011965 urease subunit alpha; Reviewed; Region: ureC; PRK13207 398527011966 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 398527011967 subunit interactions [polypeptide binding]; other site 398527011968 active site 398527011969 flap region; other site 398527011970 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 398527011971 gamma-beta subunit interface [polypeptide binding]; other site 398527011972 alpha-beta subunit interface [polypeptide binding]; other site 398527011973 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 398527011974 alpha-gamma subunit interface [polypeptide binding]; other site 398527011975 beta-gamma subunit interface [polypeptide binding]; other site 398527011976 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527011977 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527011978 substrate binding pocket [chemical binding]; other site 398527011979 membrane-bound complex binding site; other site 398527011980 hinge residues; other site 398527011981 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398527011982 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 398527011983 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 398527011984 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 398527011985 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 398527011986 hypothetical protein; Provisional; Region: PRK08126 398527011987 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 398527011988 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527011989 ligand binding site [chemical binding]; other site 398527011990 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 398527011991 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 398527011992 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 398527011993 Protein of unknown function (DUF796); Region: DUF796; cl01226 398527011994 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 398527011995 Protein of unknown function (DUF877); Region: DUF877; pfam05943 398527011996 Protein of unknown function (DUF770); Region: DUF770; cl01402 398527011997 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 398527011998 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527011999 Walker A motif; other site 398527012000 ATP binding site [chemical binding]; other site 398527012001 Walker B motif; other site 398527012002 arginine finger; other site 398527012003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527012004 Walker A motif; other site 398527012005 ATP binding site [chemical binding]; other site 398527012006 Walker B motif; other site 398527012007 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 398527012008 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 398527012009 ImpE protein; Region: ImpE; pfam07024 398527012010 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 398527012011 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398527012012 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 398527012013 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 398527012014 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 398527012015 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 398527012016 UreD urease accessory protein; Region: UreD; cl00530 398527012017 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 398527012018 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527012019 Walker A/P-loop; other site 398527012020 ATP binding site [chemical binding]; other site 398527012021 Q-loop/lid; other site 398527012022 ABC transporter signature motif; other site 398527012023 Walker B; other site 398527012024 D-loop; other site 398527012025 H-loop/switch region; other site 398527012026 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 398527012027 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527012028 Walker A/P-loop; other site 398527012029 ATP binding site [chemical binding]; other site 398527012030 Q-loop/lid; other site 398527012031 ABC transporter signature motif; other site 398527012032 Walker B; other site 398527012033 D-loop; other site 398527012034 H-loop/switch region; other site 398527012035 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527012036 TM-ABC transporter signature motif; other site 398527012037 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527012038 TM-ABC transporter signature motif; other site 398527012039 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527012040 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 398527012041 putative ligand binding site [chemical binding]; other site 398527012042 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 398527012043 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 398527012044 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 398527012045 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 398527012046 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 398527012047 active site residue [active] 398527012048 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 398527012049 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527012050 S-adenosylmethionine binding site [chemical binding]; other site 398527012051 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527012052 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527012053 DNA binding site [nucleotide binding] 398527012054 domain linker motif; other site 398527012055 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 398527012056 dimerization interface [polypeptide binding]; other site 398527012057 ligand binding site [chemical binding]; other site 398527012058 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527012059 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527012060 Walker A/P-loop; other site 398527012061 ATP binding site [chemical binding]; other site 398527012062 Q-loop/lid; other site 398527012063 ABC transporter signature motif; other site 398527012064 Walker B; other site 398527012065 D-loop; other site 398527012066 H-loop/switch region; other site 398527012067 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527012068 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527012069 TM-ABC transporter signature motif; other site 398527012070 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 398527012071 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527012072 putative ligand binding site [chemical binding]; other site 398527012073 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398527012074 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 398527012075 Metal-binding active site; metal-binding site 398527012076 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 398527012077 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398527012078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527012079 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 398527012080 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527012081 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 398527012082 putative ligand binding site [chemical binding]; other site 398527012083 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 398527012084 Helix-turn-helix domains; Region: HTH; cl00088 398527012085 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 398527012086 substrate binding site [chemical binding]; other site 398527012087 dimerization interface [polypeptide binding]; other site 398527012088 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 398527012089 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398527012090 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398527012091 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 398527012092 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 398527012093 Active Sites [active] 398527012094 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 398527012095 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 398527012096 Active Sites [active] 398527012097 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 398527012098 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 398527012099 CysD dimerization site [polypeptide binding]; other site 398527012100 G1 box; other site 398527012101 putative GEF interaction site [polypeptide binding]; other site 398527012102 GTP/Mg2+ binding site [chemical binding]; other site 398527012103 Switch I region; other site 398527012104 G2 box; other site 398527012105 G3 box; other site 398527012106 Switch II region; other site 398527012107 G4 box; other site 398527012108 G5 box; other site 398527012109 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 398527012110 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 398527012111 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 398527012112 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 398527012113 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398527012114 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527012115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527012116 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 398527012117 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527012118 D-galactonate transporter; Region: 2A0114; TIGR00893 398527012119 putative substrate translocation pore; other site 398527012120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527012121 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 398527012122 NAD(P) binding site [chemical binding]; other site 398527012123 active site 398527012124 short chain dehydrogenase; Provisional; Region: PRK12829 398527012125 classical (c) SDRs; Region: SDR_c; cd05233 398527012126 NAD(P) binding site [chemical binding]; other site 398527012127 active site 398527012128 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 398527012129 putative active site [active] 398527012130 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 398527012131 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 398527012132 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 398527012133 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 398527012134 multifunctional aminopeptidase A; Provisional; Region: PRK00913 398527012135 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 398527012136 interface (dimer of trimers) [polypeptide binding]; other site 398527012137 Substrate-binding/catalytic site; other site 398527012138 Zn-binding sites [ion binding]; other site 398527012139 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 398527012140 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 398527012141 Cytochrome c; Region: Cytochrom_C; cl11414 398527012142 Dehydratase family; Region: ILVD_EDD; cl00340 398527012143 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398527012144 Helix-turn-helix domains; Region: HTH; cl00088 398527012145 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 398527012146 putative dimerization interface [polypeptide binding]; other site 398527012147 putative substrate binding pocket [chemical binding]; other site 398527012148 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 398527012149 Protein of unknown function (DUF541); Region: SIMPL; cl01077 398527012150 EVE domain; Region: EVE; cl00728 398527012151 Cell division protein ZapA; Region: ZapA; cl01146 398527012152 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 398527012153 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398527012154 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398527012155 N-terminal plug; other site 398527012156 ligand-binding site [chemical binding]; other site 398527012157 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 398527012158 ABC-ATPase subunit interface; other site 398527012159 dimer interface [polypeptide binding]; other site 398527012160 putative PBP binding regions; other site 398527012161 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398527012162 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398527012163 Walker A/P-loop; other site 398527012164 ATP binding site [chemical binding]; other site 398527012165 Q-loop/lid; other site 398527012166 ABC transporter signature motif; other site 398527012167 Walker B; other site 398527012168 D-loop; other site 398527012169 H-loop/switch region; other site 398527012170 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 398527012171 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 398527012172 putative dimer interface [polypeptide binding]; other site 398527012173 active site pocket [active] 398527012174 putative cataytic base [active] 398527012175 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 398527012176 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 398527012177 catalytic core [active] 398527012178 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 398527012179 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 398527012180 cobalamin binding residues [chemical binding]; other site 398527012181 putative BtuC binding residues; other site 398527012182 dimer interface [polypeptide binding]; other site 398527012183 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 398527012184 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527012185 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527012186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527012187 homodimer interface [polypeptide binding]; other site 398527012188 catalytic residue [active] 398527012189 CobD/Cbib protein; Region: CobD_Cbib; cl00561 398527012190 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 398527012191 homotrimer interface [polypeptide binding]; other site 398527012192 Walker A motif; other site 398527012193 GTP binding site [chemical binding]; other site 398527012194 Walker B motif; other site 398527012195 cobyric acid synthase; Provisional; Region: PRK00784 398527012196 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527012197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527012198 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 398527012199 catalytic triad [active] 398527012200 DoxX; Region: DoxX; cl00976 398527012201 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398527012202 CoenzymeA binding site [chemical binding]; other site 398527012203 subunit interaction site [polypeptide binding]; other site 398527012204 PHB binding site; other site 398527012205 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398527012206 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 398527012207 P-loop; other site 398527012208 Magnesium ion binding site [ion binding]; other site 398527012209 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 398527012210 tetramerization interface [polypeptide binding]; other site 398527012211 active site 398527012212 Pantoate-beta-alanine ligase; Region: PanC; cd00560 398527012213 active site 398527012214 ATP-binding site [chemical binding]; other site 398527012215 pantoate-binding site; other site 398527012216 HXXH motif; other site 398527012217 ScpA/B protein; Region: ScpA_ScpB; cl00598 398527012218 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 398527012219 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 398527012220 Surface antigen; Region: Bac_surface_Ag; cl03097 398527012221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 398527012222 Family of unknown function (DUF490); Region: DUF490; pfam04357 398527012223 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 398527012224 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 398527012225 active site 398527012226 HIGH motif; other site 398527012227 KMSKS motif; other site 398527012228 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 398527012229 tRNA binding surface [nucleotide binding]; other site 398527012230 anticodon binding site; other site 398527012231 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 398527012232 dimer interface [polypeptide binding]; other site 398527012233 putative tRNA-binding site [nucleotide binding]; other site 398527012234 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527012235 ligand binding site [chemical binding]; other site 398527012236 Domain of unknown function DUF59; Region: DUF59; cl00941 398527012237 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 398527012238 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 398527012239 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 398527012240 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 398527012241 E-class dimer interface [polypeptide binding]; other site 398527012242 P-class dimer interface [polypeptide binding]; other site 398527012243 active site 398527012244 Cu2+ binding site [ion binding]; other site 398527012245 Zn2+ binding site [ion binding]; other site 398527012246 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 398527012247 trimer interface [polypeptide binding]; other site 398527012248 active site 398527012249 arginine decarboxylase; Provisional; Region: PRK15029 398527012250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 398527012251 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527012252 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527012253 catalytic residue [active] 398527012254 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 398527012255 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 398527012256 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 398527012257 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 398527012258 Sulfatase; Region: Sulfatase; cl10460 398527012259 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 398527012260 Sulfatase; Region: Sulfatase; cl10460 398527012261 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 398527012262 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 398527012263 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398527012264 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398527012265 putative active site [active] 398527012266 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 398527012267 putative active site [active] 398527012268 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 398527012269 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 398527012270 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 398527012271 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398527012272 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527012273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 398527012274 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527012275 dimer interface [polypeptide binding]; other site 398527012276 conserved gate region; other site 398527012277 putative PBP binding loops; other site 398527012278 ABC-ATPase subunit interface; other site 398527012279 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398527012280 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 398527012281 Walker A/P-loop; other site 398527012282 ATP binding site [chemical binding]; other site 398527012283 Q-loop/lid; other site 398527012284 ABC transporter signature motif; other site 398527012285 Walker B; other site 398527012286 D-loop; other site 398527012287 H-loop/switch region; other site 398527012288 TOBE domain; Region: TOBE_2; cl01440 398527012289 transcriptional regulator; Provisional; Region: PRK10632 398527012290 Helix-turn-helix domains; Region: HTH; cl00088 398527012291 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 398527012292 putative effector binding pocket; other site 398527012293 putative dimerization interface [polypeptide binding]; other site 398527012294 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527012295 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 398527012296 C-terminal domain interface [polypeptide binding]; other site 398527012297 GSH binding site (G-site) [chemical binding]; other site 398527012298 dimer interface [polypeptide binding]; other site 398527012299 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 398527012300 N-terminal domain interface [polypeptide binding]; other site 398527012301 dimer interface [polypeptide binding]; other site 398527012302 substrate binding pocket (H-site) [chemical binding]; other site 398527012303 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 398527012304 flagellar capping protein; Reviewed; Region: fliD; PRK08032 398527012305 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 398527012306 Predicted membrane protein [Function unknown]; Region: COG2860 398527012307 UPF0126 domain; Region: UPF0126; pfam03458 398527012308 UPF0126 domain; Region: UPF0126; pfam03458 398527012309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 398527012310 Smr domain; Region: Smr; cl02619 398527012311 thioredoxin reductase; Provisional; Region: PRK10262 398527012312 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527012313 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 398527012314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527012315 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 398527012316 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 398527012317 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 398527012318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527012319 Helix-turn-helix domains; Region: HTH; cl00088 398527012320 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527012321 dimerization interface [polypeptide binding]; other site 398527012322 Arginase family; Region: Arginase; cl00306 398527012323 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527012324 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527012325 recombination factor protein RarA; Reviewed; Region: PRK13342 398527012326 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527012327 Walker A motif; other site 398527012328 ATP binding site [chemical binding]; other site 398527012329 Walker B motif; other site 398527012330 arginine finger; other site 398527012331 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 398527012332 seryl-tRNA synthetase; Provisional; Region: PRK05431 398527012333 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 398527012334 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 398527012335 dimer interface [polypeptide binding]; other site 398527012336 active site 398527012337 motif 1; other site 398527012338 motif 2; other site 398527012339 motif 3; other site 398527012340 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 398527012341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527012342 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 398527012343 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 398527012344 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527012345 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527012346 S-adenosylmethionine binding site [chemical binding]; other site 398527012347 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527012348 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398527012349 substrate binding pocket [chemical binding]; other site 398527012350 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527012351 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 398527012352 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398527012353 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 398527012354 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 398527012355 active site 398527012356 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527012357 Coenzyme A binding pocket [chemical binding]; other site 398527012358 septum formation inhibitor; Reviewed; Region: PRK01973 398527012359 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 398527012360 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 398527012361 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 398527012362 Switch I; other site 398527012363 Switch II; other site 398527012364 Septum formation topological specificity factor MinE; Region: MinE; cl00538 398527012365 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 398527012366 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 398527012367 putative ion selectivity filter; other site 398527012368 putative pore gating glutamate residue; other site 398527012369 putative H+/Cl- coupling transport residue; other site 398527012370 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398527012371 putative active site [active] 398527012372 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527012373 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527012374 putative substrate translocation pore; other site 398527012375 argininosuccinate lyase; Provisional; Region: PRK00855 398527012376 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 398527012377 active sites [active] 398527012378 tetramer interface [polypeptide binding]; other site 398527012379 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527012380 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398527012381 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527012382 S-adenosylmethionine binding site [chemical binding]; other site 398527012383 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 398527012384 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 398527012385 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 398527012386 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 398527012387 domain interfaces; other site 398527012388 active site 398527012389 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 398527012390 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 398527012391 active site 398527012392 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 398527012393 hemY protein; Region: hemY_coli; TIGR00540 398527012394 HemY protein N-terminus; Region: HemY_N; pfam07219 398527012395 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 398527012396 TPR motif; other site 398527012397 binding surface 398527012398 RloB-like protein; Region: RloB; pfam13707 398527012399 Predicted ATPases [General function prediction only]; Region: COG1106 398527012400 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 398527012401 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527012402 active site 398527012403 DNA binding site [nucleotide binding] 398527012404 Int/Topo IB signature motif; other site 398527012405 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 398527012406 Putative transposase; Region: Y2_Tnp; pfam04986 398527012407 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 398527012408 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527012409 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527012410 Helix-turn-helix domains; Region: HTH; cl00088 398527012411 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527012412 dimerization interface [polypeptide binding]; other site 398527012413 substrate binding pocket [chemical binding]; other site 398527012414 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 398527012415 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527012416 putative effector binding pocket; other site 398527012417 dimerization interface [polypeptide binding]; other site 398527012418 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527012419 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527012420 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527012421 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527012422 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 398527012423 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527012424 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398527012425 conserved cys residue [active] 398527012426 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 398527012427 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 398527012428 zinc binding site [ion binding]; other site 398527012429 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398527012430 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527012431 ligand binding site [chemical binding]; other site 398527012432 flexible hinge region; other site 398527012433 Helix-turn-helix domains; Region: HTH; cl00088 398527012434 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398527012435 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527012436 putative substrate translocation pore; other site 398527012437 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 398527012438 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527012439 putative NAD(P) binding site [chemical binding]; other site 398527012440 active site 398527012441 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527012442 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 398527012443 NAD(P) binding site [chemical binding]; other site 398527012444 catalytic residues [active] 398527012445 catalytic residues [active] 398527012446 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 398527012447 dimer interface [polypeptide binding]; other site 398527012448 substrate binding site [chemical binding]; other site 398527012449 metal binding sites [ion binding]; metal-binding site 398527012450 Helix-turn-helix domains; Region: HTH; cl00088 398527012451 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527012452 classical (c) SDRs; Region: SDR_c; cd05233 398527012453 NAD(P) binding site [chemical binding]; other site 398527012454 active site 398527012455 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398527012456 Isochorismatase family; Region: Isochorismatase; pfam00857 398527012457 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 398527012458 catalytic triad [active] 398527012459 conserved cis-peptide bond; other site 398527012460 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527012461 Coenzyme A binding pocket [chemical binding]; other site 398527012462 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527012463 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 398527012464 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527012465 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527012466 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 398527012467 putative C-terminal domain interface [polypeptide binding]; other site 398527012468 putative GSH binding site (G-site) [chemical binding]; other site 398527012469 putative dimer interface [polypeptide binding]; other site 398527012470 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 398527012471 putative N-terminal domain interface [polypeptide binding]; other site 398527012472 putative dimer interface [polypeptide binding]; other site 398527012473 putative substrate binding pocket (H-site) [chemical binding]; other site 398527012474 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398527012475 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398527012476 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398527012477 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 398527012478 FAD binding pocket [chemical binding]; other site 398527012479 FAD binding motif [chemical binding]; other site 398527012480 phosphate binding motif [ion binding]; other site 398527012481 beta-alpha-beta structure motif; other site 398527012482 NAD binding pocket [chemical binding]; other site 398527012483 Heme binding pocket [chemical binding]; other site 398527012484 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527012485 catalytic loop [active] 398527012486 iron binding site [ion binding]; other site 398527012487 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527012488 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527012489 DNA-binding site [nucleotide binding]; DNA binding site 398527012490 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527012491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527012492 homodimer interface [polypeptide binding]; other site 398527012493 catalytic residue [active] 398527012494 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527012495 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 398527012496 dimerization interface [polypeptide binding]; other site 398527012497 ligand binding site [chemical binding]; other site 398527012498 Cupin domain; Region: Cupin_2; cl09118 398527012499 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527012500 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527012501 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527012502 Cupin domain; Region: Cupin_2; cl09118 398527012503 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527012504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527012505 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398527012506 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527012507 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 398527012508 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 398527012509 GIY-YIG motif/motif A; other site 398527012510 putative active site [active] 398527012511 putative metal binding site [ion binding]; other site 398527012512 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527012513 Protein of unknown function, DUF482; Region: DUF482; pfam04339 398527012514 NAD synthetase; Provisional; Region: PRK13981 398527012515 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 398527012516 multimer interface [polypeptide binding]; other site 398527012517 active site 398527012518 catalytic triad [active] 398527012519 protein interface 1 [polypeptide binding]; other site 398527012520 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 398527012521 homodimer interface [polypeptide binding]; other site 398527012522 NAD binding pocket [chemical binding]; other site 398527012523 ATP binding pocket [chemical binding]; other site 398527012524 Mg binding site [ion binding]; other site 398527012525 active-site loop [active] 398527012526 Nitrogen regulatory protein P-II; Region: P-II; cl00412 398527012527 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398527012528 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527012529 trimer interface [polypeptide binding]; other site 398527012530 eyelet of channel; other site 398527012531 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 398527012532 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 398527012533 Walker A/P-loop; other site 398527012534 ATP binding site [chemical binding]; other site 398527012535 Q-loop/lid; other site 398527012536 ABC transporter signature motif; other site 398527012537 Walker B; other site 398527012538 D-loop; other site 398527012539 H-loop/switch region; other site 398527012540 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527012541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527012542 dimer interface [polypeptide binding]; other site 398527012543 conserved gate region; other site 398527012544 putative PBP binding loops; other site 398527012545 ABC-ATPase subunit interface; other site 398527012546 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527012547 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527012548 dimer interface [polypeptide binding]; other site 398527012549 conserved gate region; other site 398527012550 putative PBP binding loops; other site 398527012551 ABC-ATPase subunit interface; other site 398527012552 Pirin-related protein [General function prediction only]; Region: COG1741 398527012553 Cupin domain; Region: Cupin_2; cl09118 398527012554 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 398527012555 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398527012556 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527012557 active site 398527012558 phosphorylation site [posttranslational modification] 398527012559 intermolecular recognition site; other site 398527012560 dimerization interface [polypeptide binding]; other site 398527012561 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527012562 DNA binding site [nucleotide binding] 398527012563 Pathogenicity factor; Region: AvrE; pfam11725 398527012564 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 398527012565 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527012566 dimer interface [polypeptide binding]; other site 398527012567 phosphorylation site [posttranslational modification] 398527012568 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527012569 ATP binding site [chemical binding]; other site 398527012570 Mg2+ binding site [ion binding]; other site 398527012571 G-X-G motif; other site 398527012572 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 398527012573 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527012574 metal binding site [ion binding]; metal-binding site 398527012575 active site 398527012576 I-site; other site 398527012577 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 398527012578 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527012579 dimer interface [polypeptide binding]; other site 398527012580 conserved gate region; other site 398527012581 putative PBP binding loops; other site 398527012582 ABC-ATPase subunit interface; other site 398527012583 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527012584 dimer interface [polypeptide binding]; other site 398527012585 conserved gate region; other site 398527012586 putative PBP binding loops; other site 398527012587 ABC-ATPase subunit interface; other site 398527012588 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398527012589 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 398527012590 Walker A/P-loop; other site 398527012591 ATP binding site [chemical binding]; other site 398527012592 Q-loop/lid; other site 398527012593 ABC transporter signature motif; other site 398527012594 Walker B; other site 398527012595 D-loop; other site 398527012596 H-loop/switch region; other site 398527012597 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 398527012598 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398527012599 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527012600 Walker A motif; other site 398527012601 ATP binding site [chemical binding]; other site 398527012602 Walker B motif; other site 398527012603 arginine finger; other site 398527012604 Helix-turn-helix domains; Region: HTH; cl00088 398527012605 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 398527012606 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398527012607 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527012608 active site 398527012609 phosphorylation site [posttranslational modification] 398527012610 intermolecular recognition site; other site 398527012611 dimerization interface [polypeptide binding]; other site 398527012612 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527012613 Walker A motif; other site 398527012614 ATP binding site [chemical binding]; other site 398527012615 Walker B motif; other site 398527012616 arginine finger; other site 398527012617 Helix-turn-helix domains; Region: HTH; cl00088 398527012618 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 398527012619 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 398527012620 active site 398527012621 homotetramer interface [polypeptide binding]; other site 398527012622 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527012623 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527012624 putative substrate translocation pore; other site 398527012625 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398527012626 substrate binding site [chemical binding]; other site 398527012627 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 398527012628 additional DNA contacts [nucleotide binding]; other site 398527012629 mismatch recognition site; other site 398527012630 active site 398527012631 zinc binding site [ion binding]; other site 398527012632 DNA intercalation site [nucleotide binding]; other site 398527012633 DNA cytosine methylase; Provisional; Region: PRK10458 398527012634 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 398527012635 cofactor binding site; other site 398527012636 DNA binding site [nucleotide binding] 398527012637 substrate interaction site [chemical binding]; other site 398527012638 CsbD-like; Region: CsbD; cl15799 398527012639 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 398527012640 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 398527012641 C-terminal domain interface [polypeptide binding]; other site 398527012642 GSH binding site (G-site) [chemical binding]; other site 398527012643 dimer interface [polypeptide binding]; other site 398527012644 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 398527012645 dimer interface [polypeptide binding]; other site 398527012646 N-terminal domain interface [polypeptide binding]; other site 398527012647 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527012648 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 398527012649 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 398527012650 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 398527012651 active site 398527012652 DNA binding site [nucleotide binding] 398527012653 Int/Topo IB signature motif; other site 398527012654 ParB-like nuclease domain; Region: ParBc; cl02129 398527012655 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 398527012656 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 398527012657 cofactor binding site; other site 398527012658 DNA binding site [nucleotide binding] 398527012659 substrate interaction site [chemical binding]; other site 398527012660 ParB-like nuclease domain; Region: ParBc; cl02129 398527012661 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398527012662 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527012663 non-specific DNA binding site [nucleotide binding]; other site 398527012664 salt bridge; other site 398527012665 sequence-specific DNA binding site [nucleotide binding]; other site 398527012666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 398527012667 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 398527012668 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 398527012669 Virulence-associated protein E; Region: VirE; pfam05272 398527012670 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 398527012671 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 398527012672 Zn binding sites [ion binding]; other site 398527012673 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 398527012674 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 398527012675 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 398527012676 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 398527012677 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 398527012678 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 398527012679 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 398527012680 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 398527012681 Phage-related minor tail protein [Function unknown]; Region: COG5281 398527012682 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 398527012683 catalytic residues [active] 398527012684 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398527012685 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527012686 Walker A motif; other site 398527012687 ATP binding site [chemical binding]; other site 398527012688 Walker B motif; other site 398527012689 Integrase core domain; Region: rve; cl01316 398527012690 OpgC protein; Region: OpgC_C; cl00792 398527012691 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398527012692 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 398527012693 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 398527012694 Rubredoxin; Region: Rubredoxin; pfam00301 398527012695 iron binding site [ion binding]; other site 398527012696 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 398527012697 ABC transporter ATPase component; Reviewed; Region: PRK11147 398527012698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527012699 Walker A/P-loop; other site 398527012700 ATP binding site [chemical binding]; other site 398527012701 Q-loop/lid; other site 398527012702 ABC transporter signature motif; other site 398527012703 Walker B; other site 398527012704 D-loop; other site 398527012705 H-loop/switch region; other site 398527012706 ABC transporter; Region: ABC_tran_2; pfam12848 398527012707 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 398527012708 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 398527012709 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527012710 ATP binding site [chemical binding]; other site 398527012711 Mg2+ binding site [ion binding]; other site 398527012712 G-X-G motif; other site 398527012713 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 398527012714 anchoring element; other site 398527012715 dimer interface [polypeptide binding]; other site 398527012716 ATP binding site [chemical binding]; other site 398527012717 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 398527012718 active site 398527012719 metal binding site [ion binding]; metal-binding site 398527012720 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398527012721 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 398527012722 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 398527012723 CAP-like domain; other site 398527012724 active site 398527012725 primary dimer interface [polypeptide binding]; other site 398527012726 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398527012727 Copper resistance protein D; Region: CopD; cl00563 398527012728 Chromate transporter; Region: Chromate_transp; pfam02417 398527012729 Chromate transporter; Region: Chromate_transp; pfam02417 398527012730 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527012731 metal binding site [ion binding]; metal-binding site 398527012732 active site 398527012733 I-site; other site 398527012734 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527012735 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 398527012736 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398527012737 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 398527012738 homotrimer interaction site [polypeptide binding]; other site 398527012739 putative active site [active] 398527012740 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 398527012741 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527012742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527012743 homodimer interface [polypeptide binding]; other site 398527012744 catalytic residue [active] 398527012745 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 398527012746 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527012747 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527012748 DNA-binding site [nucleotide binding]; DNA binding site 398527012749 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527012750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527012751 homodimer interface [polypeptide binding]; other site 398527012752 catalytic residue [active] 398527012753 heat shock protein 90; Provisional; Region: PRK05218 398527012754 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527012755 ATP binding site [chemical binding]; other site 398527012756 Mg2+ binding site [ion binding]; other site 398527012757 G-X-G motif; other site 398527012758 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527012759 TPR repeat; Region: TPR_11; pfam13414 398527012760 binding surface 398527012761 TPR motif; other site 398527012762 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527012763 binding surface 398527012764 TPR motif; other site 398527012765 TPR repeat; Region: TPR_11; pfam13414 398527012766 TPR repeat; Region: TPR_11; pfam13414 398527012767 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527012768 binding surface 398527012769 TPR motif; other site 398527012770 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 398527012771 TPR motif; other site 398527012772 binding surface 398527012773 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398527012774 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527012775 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527012776 ligand binding site [chemical binding]; other site 398527012777 UTRA domain; Region: UTRA; cl01230 398527012778 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 398527012779 putative active site [active] 398527012780 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527012781 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 398527012782 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527012783 Na binding site [ion binding]; other site 398527012784 Predicted membrane protein [Function unknown]; Region: COG1289 398527012785 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 398527012786 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 398527012787 dimer interface [polypeptide binding]; other site 398527012788 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527012789 transaldolase-like protein; Provisional; Region: PTZ00411 398527012790 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 398527012791 active site 398527012792 dimer interface [polypeptide binding]; other site 398527012793 catalytic residue [active] 398527012794 Benzoate membrane transport protein; Region: BenE; pfam03594 398527012795 benzoate transporter; Region: benE; TIGR00843 398527012796 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 398527012797 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 398527012798 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398527012799 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527012800 Walker A motif; other site 398527012801 ATP binding site [chemical binding]; other site 398527012802 Walker B motif; other site 398527012803 arginine finger; other site 398527012804 Cytochrome c; Region: Cytochrom_C; cl11414 398527012805 Cytochrome c; Region: Cytochrom_C; cl11414 398527012806 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 398527012807 endonuclease III; Provisional; Region: PRK10702 398527012808 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398527012809 minor groove reading motif; other site 398527012810 helix-hairpin-helix signature motif; other site 398527012811 substrate binding pocket [chemical binding]; other site 398527012812 active site 398527012813 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 398527012814 ferredoxin; Provisional; Region: PRK06991 398527012815 Putative Fe-S cluster; Region: FeS; pfam04060 398527012816 4Fe-4S binding domain; Region: Fer4; cl02805 398527012817 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 398527012818 Helix-turn-helix domains; Region: HTH; cl00088 398527012819 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 398527012820 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 398527012821 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 398527012822 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 398527012823 Protein of unknown function (DUF3096); Region: DUF3096; pfam11295 398527012824 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 398527012825 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 398527012826 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527012827 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 398527012828 META domain; Region: META; cl01245 398527012829 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 398527012830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527012831 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527012832 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 398527012833 acetolactate synthase; Reviewed; Region: PRK08322 398527012834 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527012835 PYR/PP interface [polypeptide binding]; other site 398527012836 dimer interface [polypeptide binding]; other site 398527012837 TPP binding site [chemical binding]; other site 398527012838 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527012839 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 398527012840 TPP-binding site [chemical binding]; other site 398527012841 dimer interface [polypeptide binding]; other site 398527012842 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 398527012843 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527012844 NAD(P) binding site [chemical binding]; other site 398527012845 catalytic residues [active] 398527012846 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 398527012847 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 398527012848 ATP binding site [chemical binding]; other site 398527012849 Mg++ binding site [ion binding]; other site 398527012850 motif III; other site 398527012851 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527012852 nucleotide binding region [chemical binding]; other site 398527012853 ATP-binding site [chemical binding]; other site 398527012854 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398527012855 active site 398527012856 HIGH motif; other site 398527012857 nucleotide binding site [chemical binding]; other site 398527012858 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398527012859 active site 398527012860 KMSKS motif; other site 398527012861 rhodanese superfamily protein; Provisional; Region: PRK05320 398527012862 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 398527012863 active site residue [active] 398527012864 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 398527012865 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 398527012866 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 398527012867 generic binding surface II; other site 398527012868 generic binding surface I; other site 398527012869 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 398527012870 putative metal binding site; other site 398527012871 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 398527012872 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 398527012873 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 398527012874 Walker A/P-loop; other site 398527012875 ATP binding site [chemical binding]; other site 398527012876 Q-loop/lid; other site 398527012877 ABC transporter signature motif; other site 398527012878 Walker B; other site 398527012879 D-loop; other site 398527012880 H-loop/switch region; other site 398527012881 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 398527012882 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 398527012883 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398527012884 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398527012885 putative active site [active] 398527012886 O-Antigen ligase; Region: Wzy_C; cl04850 398527012887 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527012888 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 398527012889 putative ADP-binding pocket [chemical binding]; other site 398527012890 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527012891 Putative exonuclease, RdgC; Region: RdgC; cl01122 398527012892 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 398527012893 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 398527012894 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398527012895 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 398527012896 Spore Coat Protein U domain; Region: SCPU; cl02253 398527012897 Spore Coat Protein U domain; Region: SCPU; cl02253 398527012898 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398527012899 PapC N-terminal domain; Region: PapC_N; pfam13954 398527012900 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398527012901 PapC C-terminal domain; Region: PapC_C; pfam13953 398527012902 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398527012903 Spore Coat Protein U domain; Region: SCPU; cl02253 398527012904 H+ Antiporter protein; Region: 2A0121; TIGR00900 398527012905 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527012906 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 398527012907 dimer interface [polypeptide binding]; other site 398527012908 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 398527012909 putative dimer interface [polypeptide binding]; other site 398527012910 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527012911 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 398527012912 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 398527012913 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 398527012914 NlpC/P60 family; Region: NLPC_P60; cl11438 398527012915 TOBE domain; Region: TOBE_2; cl01440 398527012916 TOBE domain; Region: TOBE_2; cl01440 398527012917 GAF domain; Region: GAF; cl15785 398527012918 PAS domain S-box; Region: sensory_box; TIGR00229 398527012919 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527012920 putative active site [active] 398527012921 heme pocket [chemical binding]; other site 398527012922 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527012923 metal binding site [ion binding]; metal-binding site 398527012924 active site 398527012925 I-site; other site 398527012926 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527012927 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 398527012928 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398527012929 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 398527012930 heme binding pocket [chemical binding]; other site 398527012931 PAS domain; Region: PAS_9; pfam13426 398527012932 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527012933 PAS fold; Region: PAS_3; pfam08447 398527012934 putative active site [active] 398527012935 heme pocket [chemical binding]; other site 398527012936 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527012937 dimer interface [polypeptide binding]; other site 398527012938 phosphorylation site [posttranslational modification] 398527012939 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527012940 ATP binding site [chemical binding]; other site 398527012941 Mg2+ binding site [ion binding]; other site 398527012942 G-X-G motif; other site 398527012943 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527012944 Response regulator receiver domain; Region: Response_reg; pfam00072 398527012945 active site 398527012946 phosphorylation site [posttranslational modification] 398527012947 intermolecular recognition site; other site 398527012948 dimerization interface [polypeptide binding]; other site 398527012949 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 398527012950 GAF domain; Region: GAF; cl15785 398527012951 Phytochrome region; Region: PHY; pfam00360 398527012952 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527012953 dimer interface [polypeptide binding]; other site 398527012954 phosphorylation site [posttranslational modification] 398527012955 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527012956 ATP binding site [chemical binding]; other site 398527012957 Mg2+ binding site [ion binding]; other site 398527012958 G-X-G motif; other site 398527012959 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527012960 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 398527012961 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 398527012962 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527012963 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398527012964 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527012965 dimer interface [polypeptide binding]; other site 398527012966 phosphorylation site [posttranslational modification] 398527012967 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527012968 ATP binding site [chemical binding]; other site 398527012969 Mg2+ binding site [ion binding]; other site 398527012970 G-X-G motif; other site 398527012971 Response regulator receiver domain; Region: Response_reg; pfam00072 398527012972 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527012973 active site 398527012974 phosphorylation site [posttranslational modification] 398527012975 intermolecular recognition site; other site 398527012976 dimerization interface [polypeptide binding]; other site 398527012977 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 398527012978 Response regulator receiver domain; Region: Response_reg; pfam00072 398527012979 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527012980 active site 398527012981 phosphorylation site [posttranslational modification] 398527012982 intermolecular recognition site; other site 398527012983 dimerization interface [polypeptide binding]; other site 398527012984 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 398527012985 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 398527012986 Uncharacterized conserved protein [Function unknown]; Region: COG5361 398527012987 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 398527012988 ribonuclease G; Provisional; Region: PRK11712 398527012989 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 398527012990 homodimer interface [polypeptide binding]; other site 398527012991 oligonucleotide binding site [chemical binding]; other site 398527012992 Maf-like protein; Region: Maf; pfam02545 398527012993 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 398527012994 active site 398527012995 dimer interface [polypeptide binding]; other site 398527012996 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 398527012997 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 398527012998 Oligomerisation domain; Region: Oligomerisation; cl00519 398527012999 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 398527013000 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 398527013001 active site 398527013002 (T/H)XGH motif; other site 398527013003 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 398527013004 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 398527013005 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 398527013006 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527013007 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 398527013008 Transcriptional regulator; Region: Transcrip_reg; cl00361 398527013009 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398527013010 active site 398527013011 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527013012 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 398527013013 putative NAD(P) binding site [chemical binding]; other site 398527013014 putative active site [active] 398527013015 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 398527013016 active site 398527013017 dimer interfaces [polypeptide binding]; other site 398527013018 catalytic residues [active] 398527013019 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 398527013020 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 398527013021 NADP binding site [chemical binding]; other site 398527013022 dimer interface [polypeptide binding]; other site 398527013023 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 398527013024 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 398527013025 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398527013026 K+-transporting ATPase, c chain; Region: KdpC; cl00944 398527013027 sensor protein KdpD; Provisional; Region: PRK10490 398527013028 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 398527013029 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 398527013030 Ligand Binding Site [chemical binding]; other site 398527013031 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 398527013032 GAF domain; Region: GAF; cl15785 398527013033 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527013034 dimer interface [polypeptide binding]; other site 398527013035 phosphorylation site [posttranslational modification] 398527013036 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527013037 ATP binding site [chemical binding]; other site 398527013038 Mg2+ binding site [ion binding]; other site 398527013039 G-X-G motif; other site 398527013040 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 398527013041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527013042 active site 398527013043 phosphorylation site [posttranslational modification] 398527013044 intermolecular recognition site; other site 398527013045 dimerization interface [polypeptide binding]; other site 398527013046 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527013047 DNA binding site [nucleotide binding] 398527013048 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 398527013049 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 398527013050 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 398527013051 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 398527013052 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 398527013053 apolar tunnel; other site 398527013054 heme binding site [chemical binding]; other site 398527013055 dimerization interface [polypeptide binding]; other site 398527013056 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 398527013057 short chain dehydrogenase; Provisional; Region: PRK06123 398527013058 classical (c) SDRs; Region: SDR_c; cd05233 398527013059 NAD(P) binding site [chemical binding]; other site 398527013060 active site 398527013061 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 398527013062 Helix-turn-helix domains; Region: HTH; cl00088 398527013063 Bacterial transcriptional repressor; Region: TetR; pfam13972 398527013064 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 398527013065 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527013066 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 398527013067 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398527013068 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 398527013069 putative active site [active] 398527013070 putative metal binding site [ion binding]; other site 398527013071 RDD family; Region: RDD; cl00746 398527013072 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 398527013073 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 398527013074 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527013075 RNA polymerase factor sigma-70; Validated; Region: PRK09047 398527013076 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527013077 DNA binding residues [nucleotide binding] 398527013078 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 398527013079 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527013080 PYR/PP interface [polypeptide binding]; other site 398527013081 dimer interface [polypeptide binding]; other site 398527013082 TPP binding site [chemical binding]; other site 398527013083 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527013084 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 398527013085 TPP-binding site [chemical binding]; other site 398527013086 dimer interface [polypeptide binding]; other site 398527013087 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 398527013088 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 398527013089 putative valine binding site [chemical binding]; other site 398527013090 dimer interface [polypeptide binding]; other site 398527013091 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 398527013092 ketol-acid reductoisomerase; Provisional; Region: PRK05479 398527013093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527013094 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 398527013095 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 398527013096 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 398527013097 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 398527013098 2-isopropylmalate synthase; Validated; Region: PRK00915 398527013099 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 398527013100 active site 398527013101 catalytic residues [active] 398527013102 metal binding site [ion binding]; metal-binding site 398527013103 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 398527013104 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398527013105 Sulfate transporter family; Region: Sulfate_transp; cl15842 398527013106 Sulfate transporter family; Region: Sulfate_transp; cl15842 398527013107 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 398527013108 active site clefts [active] 398527013109 zinc binding site [ion binding]; other site 398527013110 dimer interface [polypeptide binding]; other site 398527013111 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527013112 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 398527013113 putative ligand binding site [chemical binding]; other site 398527013114 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 398527013115 16S/18S rRNA binding site [nucleotide binding]; other site 398527013116 S13e-L30e interaction site [polypeptide binding]; other site 398527013117 25S rRNA binding site [nucleotide binding]; other site 398527013118 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 398527013119 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 398527013120 RNase E interface [polypeptide binding]; other site 398527013121 trimer interface [polypeptide binding]; other site 398527013122 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 398527013123 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 398527013124 RNase E interface [polypeptide binding]; other site 398527013125 trimer interface [polypeptide binding]; other site 398527013126 active site 398527013127 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 398527013128 putative nucleic acid binding region [nucleotide binding]; other site 398527013129 G-X-X-G motif; other site 398527013130 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 398527013131 RNA binding site [nucleotide binding]; other site 398527013132 domain interface; other site 398527013133 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 398527013134 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 398527013135 NAD(P) binding site [chemical binding]; other site 398527013136 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 398527013137 substrate binding site [chemical binding]; other site 398527013138 dimer interface [polypeptide binding]; other site 398527013139 catalytic triad [active] 398527013140 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 398527013141 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 398527013142 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 398527013143 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 398527013144 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 398527013145 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 398527013146 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 398527013147 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 398527013148 putative dimer interface [polypeptide binding]; other site 398527013149 [2Fe-2S] cluster binding site [ion binding]; other site 398527013150 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 398527013151 SLBB domain; Region: SLBB; pfam10531 398527013152 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 398527013153 NADH dehydrogenase subunit G; Validated; Region: PRK09129 398527013154 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527013155 catalytic loop [active] 398527013156 iron binding site [ion binding]; other site 398527013157 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 398527013158 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 398527013159 NADH dehydrogenase; Region: NADHdh; cl00469 398527013160 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 398527013161 4Fe-4S binding domain; Region: Fer4; cl02805 398527013162 4Fe-4S binding domain; Region: Fer4; cl02805 398527013163 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 398527013164 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 398527013165 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 398527013166 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 398527013167 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 398527013168 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 398527013169 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 398527013170 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 398527013171 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 398527013172 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 398527013173 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 398527013174 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 398527013175 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 398527013176 dimer interface [polypeptide binding]; other site 398527013177 ADP-ribose binding site [chemical binding]; other site 398527013178 active site 398527013179 nudix motif; other site 398527013180 metal binding site [ion binding]; metal-binding site 398527013181 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398527013182 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 398527013183 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 398527013184 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 398527013185 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 398527013186 FAD binding site [chemical binding]; other site 398527013187 substrate binding site [chemical binding]; other site 398527013188 catalytic base [active] 398527013189 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 398527013190 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398527013191 active site 398527013192 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 398527013193 putative active site [active] 398527013194 putative catalytic site [active] 398527013195 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 398527013196 putative active site [active] 398527013197 putative catalytic site [active] 398527013198 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 398527013199 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 398527013200 C-terminal domain interface [polypeptide binding]; other site 398527013201 GSH binding site (G-site) [chemical binding]; other site 398527013202 dimer interface [polypeptide binding]; other site 398527013203 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 398527013204 N-terminal domain interface [polypeptide binding]; other site 398527013205 putative dimer interface [polypeptide binding]; other site 398527013206 active site 398527013207 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527013208 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 398527013209 FAD binding site [chemical binding]; other site 398527013210 substrate binding site [chemical binding]; other site 398527013211 catalytic base [active] 398527013212 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 398527013213 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 398527013214 putative active site [active] 398527013215 putative substrate binding site [chemical binding]; other site 398527013216 ATP binding site [chemical binding]; other site 398527013217 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 398527013218 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 398527013219 catalytic core [active] 398527013220 enoyl-CoA hydratase; Provisional; Region: PRK07511 398527013221 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527013222 substrate binding site [chemical binding]; other site 398527013223 oxyanion hole (OAH) forming residues; other site 398527013224 trimer interface [polypeptide binding]; other site 398527013225 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 398527013226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527013227 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398527013228 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398527013229 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527013230 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 398527013231 C-terminal domain interface [polypeptide binding]; other site 398527013232 GSH binding site (G-site) [chemical binding]; other site 398527013233 dimer interface [polypeptide binding]; other site 398527013234 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398527013235 N-terminal domain interface [polypeptide binding]; other site 398527013236 dimer interface [polypeptide binding]; other site 398527013237 substrate binding pocket (H-site) [chemical binding]; other site 398527013238 methionine aminotransferase; Validated; Region: PRK09082 398527013239 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527013240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527013241 homodimer interface [polypeptide binding]; other site 398527013242 catalytic residue [active] 398527013243 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 398527013244 Protein of unknown function (DUF328); Region: DUF328; cl01143 398527013245 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 398527013246 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 398527013247 putative active site [active] 398527013248 Zn binding site [ion binding]; other site 398527013249 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 398527013250 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527013251 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 398527013252 active site 398527013253 phosphorylation site [posttranslational modification] 398527013254 intermolecular recognition site; other site 398527013255 dimerization interface [polypeptide binding]; other site 398527013256 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527013257 DNA binding residues [nucleotide binding] 398527013258 dimerization interface [polypeptide binding]; other site 398527013259 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 398527013260 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 398527013261 Cell division inhibitor SulA; Region: SulA; cl01880 398527013262 DNA Polymerase Y-family; Region: PolY_like; cd03468 398527013263 DNA binding site [nucleotide binding] 398527013264 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 398527013265 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 398527013266 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 398527013267 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 398527013268 generic binding surface II; other site 398527013269 generic binding surface I; other site 398527013270 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 398527013271 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 398527013272 NADP binding site [chemical binding]; other site 398527013273 active site 398527013274 putative substrate binding site [chemical binding]; other site 398527013275 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 398527013276 metal-binding site [ion binding] 398527013277 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 398527013278 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 398527013279 DNA binding residues [nucleotide binding] 398527013280 dimer interface [polypeptide binding]; other site 398527013281 copper binding site [ion binding]; other site 398527013282 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 398527013283 NMT1-like family; Region: NMT1_2; cl15260 398527013284 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398527013285 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 398527013286 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527013287 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527013288 active site 398527013289 catalytic tetrad [active] 398527013290 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 398527013291 classical (c) SDRs; Region: SDR_c; cd05233 398527013292 NAD(P) binding site [chemical binding]; other site 398527013293 active site 398527013294 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398527013295 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398527013296 nucleophile elbow; other site 398527013297 Patatin phospholipase; Region: DUF3734; pfam12536 398527013298 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 398527013299 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527013300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527013301 homodimer interface [polypeptide binding]; other site 398527013302 catalytic residue [active] 398527013303 excinuclease ABC subunit B; Provisional; Region: PRK05298 398527013304 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527013305 ATP binding site [chemical binding]; other site 398527013306 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527013307 nucleotide binding region [chemical binding]; other site 398527013308 ATP-binding site [chemical binding]; other site 398527013309 Ultra-violet resistance protein B; Region: UvrB; pfam12344 398527013310 UvrB/uvrC motif; Region: UVR; pfam02151 398527013311 Fe2+ transport protein; Region: Iron_transport; cl01377 398527013312 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 398527013313 Iron permease FTR1 family; Region: FTR1; cl00475 398527013314 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 398527013315 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398527013316 Hemin uptake protein hemP; Region: hemP; cl10043 398527013317 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 398527013318 putative hydrophobic ligand binding site [chemical binding]; other site 398527013319 OsmC-like protein; Region: OsmC; cl00767 398527013320 Pirin-related protein [General function prediction only]; Region: COG1741 398527013321 Cupin domain; Region: Cupin_2; cl09118 398527013322 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398527013323 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527013324 Helix-turn-helix domains; Region: HTH; cl00088 398527013325 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 398527013326 putative effector binding pocket; other site 398527013327 putative dimerization interface [polypeptide binding]; other site 398527013328 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 398527013329 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398527013330 Gram-negative bacterial tonB protein; Region: TonB; cl10048 398527013331 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 398527013332 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398527013333 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 398527013334 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 398527013335 heme binding site [chemical binding]; other site 398527013336 ferroxidase pore; other site 398527013337 ferroxidase diiron center [ion binding]; other site 398527013338 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 398527013339 Fumarase C-terminus; Region: Fumerase_C; cl00795 398527013340 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 398527013341 EamA-like transporter family; Region: EamA; cl01037 398527013342 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398527013343 EamA-like transporter family; Region: EamA; cl01037 398527013344 acetyl-CoA synthetase; Provisional; Region: PRK00174 398527013345 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 398527013346 AMP-binding enzyme; Region: AMP-binding; cl15778 398527013347 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527013348 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 398527013349 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398527013350 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527013351 Na binding site [ion binding]; other site 398527013352 OpgC protein; Region: OpgC_C; cl00792 398527013353 enterobactin exporter EntS; Provisional; Region: PRK10489 398527013354 EamA-like transporter family; Region: EamA; cl01037 398527013355 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398527013356 EamA-like transporter family; Region: EamA; cl01037 398527013357 transcriptional activator TtdR; Provisional; Region: PRK09801 398527013358 Helix-turn-helix domains; Region: HTH; cl00088 398527013359 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527013360 putative effector binding pocket; other site 398527013361 dimerization interface [polypeptide binding]; other site 398527013362 L-asparaginase II; Region: Asparaginase_II; cl01842 398527013363 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 398527013364 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398527013365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527013366 active site 398527013367 phosphorylation site [posttranslational modification] 398527013368 intermolecular recognition site; other site 398527013369 dimerization interface [polypeptide binding]; other site 398527013370 Domain of unknown function (DUF305); Region: DUF305; cl15795 398527013371 TPR repeat; Region: TPR_11; pfam13414 398527013372 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527013373 binding surface 398527013374 TPR motif; other site 398527013375 TPR repeat; Region: TPR_11; pfam13414 398527013376 TPR repeat; Region: TPR_11; pfam13414 398527013377 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527013378 binding surface 398527013379 TPR motif; other site 398527013380 TPR repeat; Region: TPR_11; pfam13414 398527013381 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527013382 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527013383 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527013384 active site 398527013385 catalytic tetrad [active] 398527013386 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 398527013387 short chain dehydrogenase; Provisional; Region: PRK12937 398527013388 NADP binding site [chemical binding]; other site 398527013389 homodimer interface [polypeptide binding]; other site 398527013390 active site 398527013391 substrate binding site [chemical binding]; other site 398527013392 transcriptional regulator; Provisional; Region: PRK10632 398527013393 Helix-turn-helix domains; Region: HTH; cl00088 398527013394 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 398527013395 putative effector binding pocket; other site 398527013396 putative dimerization interface [polypeptide binding]; other site 398527013397 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527013398 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398527013399 active site 398527013400 metal binding site [ion binding]; metal-binding site 398527013401 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 398527013402 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527013403 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 398527013404 putative dimer interface [polypeptide binding]; other site 398527013405 N-terminal domain interface [polypeptide binding]; other site 398527013406 putative substrate binding pocket (H-site) [chemical binding]; other site 398527013407 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 398527013408 Helix-turn-helix domains; Region: HTH; cl00088 398527013409 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527013410 dimerization interface [polypeptide binding]; other site 398527013411 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 398527013412 ssDNA binding site [nucleotide binding]; other site 398527013413 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398527013414 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398527013415 Helix-turn-helix domains; Region: HTH; cl00088 398527013416 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527013417 dimerization interface [polypeptide binding]; other site 398527013418 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527013419 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527013420 active site 398527013421 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527013422 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527013423 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527013424 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527013425 putative substrate translocation pore; other site 398527013426 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 398527013427 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 398527013428 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 398527013429 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 398527013430 excinuclease ABC, A subunit; Region: uvra; TIGR00630 398527013431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527013432 Walker A/P-loop; other site 398527013433 ATP binding site [chemical binding]; other site 398527013434 Q-loop/lid; other site 398527013435 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 398527013436 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 398527013437 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 398527013438 Gram-negative bacterial tonB protein; Region: TonB; cl10048 398527013439 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398527013440 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 398527013441 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 398527013442 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 398527013443 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527013444 non-specific DNA binding site [nucleotide binding]; other site 398527013445 salt bridge; other site 398527013446 sequence-specific DNA binding site [nucleotide binding]; other site 398527013447 Cupin domain; Region: Cupin_2; cl09118 398527013448 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398527013449 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 398527013450 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 398527013451 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 398527013452 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 398527013453 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 398527013454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527013455 dimer interface [polypeptide binding]; other site 398527013456 conserved gate region; other site 398527013457 putative PBP binding loops; other site 398527013458 ABC-ATPase subunit interface; other site 398527013459 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 398527013460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527013461 dimer interface [polypeptide binding]; other site 398527013462 conserved gate region; other site 398527013463 putative PBP binding loops; other site 398527013464 ABC-ATPase subunit interface; other site 398527013465 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 398527013466 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527013467 Walker A/P-loop; other site 398527013468 ATP binding site [chemical binding]; other site 398527013469 Q-loop/lid; other site 398527013470 ABC transporter signature motif; other site 398527013471 Walker B; other site 398527013472 D-loop; other site 398527013473 H-loop/switch region; other site 398527013474 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527013475 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527013476 Walker A/P-loop; other site 398527013477 ATP binding site [chemical binding]; other site 398527013478 Q-loop/lid; other site 398527013479 ABC transporter signature motif; other site 398527013480 Walker B; other site 398527013481 D-loop; other site 398527013482 H-loop/switch region; other site 398527013483 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527013484 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 398527013485 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 398527013486 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 398527013487 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 398527013488 putative acetyltransferase YhhY; Provisional; Region: PRK10140 398527013489 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527013490 Coenzyme A binding pocket [chemical binding]; other site 398527013491 putative acetyltransferase YhhY; Provisional; Region: PRK10140 398527013492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527013493 Coenzyme A binding pocket [chemical binding]; other site 398527013494 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398527013495 Protein export membrane protein; Region: SecD_SecF; cl14618 398527013496 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527013497 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398527013498 conserved cys residue [active] 398527013499 Cupin domain; Region: Cupin_2; cl09118 398527013500 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 398527013501 Helix-turn-helix domains; Region: HTH; cl00088 398527013502 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527013503 dimerization interface [polypeptide binding]; other site 398527013504 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 398527013505 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527013506 Coenzyme A binding pocket [chemical binding]; other site 398527013507 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398527013508 Helix-turn-helix domains; Region: HTH; cl00088 398527013509 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527013510 dimerization interface [polypeptide binding]; other site 398527013511 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527013512 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 398527013513 NAD binding site [chemical binding]; other site 398527013514 catalytic residues [active] 398527013515 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527013516 acetaldehyde dehydrogenase; Validated; Region: PRK08300 398527013517 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527013518 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 398527013519 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 398527013520 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 398527013521 active site 398527013522 catalytic residues [active] 398527013523 metal binding site [ion binding]; metal-binding site 398527013524 DmpG-like communication domain; Region: DmpG_comm; pfam07836 398527013525 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 398527013526 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527013527 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 398527013528 homotrimer interaction site [polypeptide binding]; other site 398527013529 putative active site [active] 398527013530 Cupin domain; Region: Cupin_2; cl09118 398527013531 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527013532 kynureninase; Region: kynureninase; TIGR01814 398527013533 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527013534 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527013535 catalytic residue [active] 398527013536 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 398527013537 Cytochrome c; Region: Cytochrom_C; cl11414 398527013538 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527013539 trimer interface [polypeptide binding]; other site 398527013540 eyelet of channel; other site 398527013541 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527013542 trimer interface [polypeptide binding]; other site 398527013543 eyelet of channel; other site 398527013544 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398527013545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527013546 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398527013547 active site 398527013548 metal binding site [ion binding]; metal-binding site 398527013549 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527013550 substrate binding pocket [chemical binding]; other site 398527013551 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398527013552 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398527013553 inhibitor site; inhibition site 398527013554 active site 398527013555 dimer interface [polypeptide binding]; other site 398527013556 catalytic residue [active] 398527013557 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527013558 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527013559 DNA-binding site [nucleotide binding]; DNA binding site 398527013560 FCD domain; Region: FCD; cl11656 398527013561 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527013562 NMT1-like family; Region: NMT1_2; cl15260 398527013563 NMT1/THI5 like; Region: NMT1; pfam09084 398527013564 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 398527013565 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527013566 active site 398527013567 metal binding site [ion binding]; metal-binding site 398527013568 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398527013569 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527013570 dimer interface [polypeptide binding]; other site 398527013571 conserved gate region; other site 398527013572 putative PBP binding loops; other site 398527013573 ABC-ATPase subunit interface; other site 398527013574 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398527013575 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 398527013576 Walker A/P-loop; other site 398527013577 ATP binding site [chemical binding]; other site 398527013578 Q-loop/lid; other site 398527013579 ABC transporter signature motif; other site 398527013580 Walker B; other site 398527013581 D-loop; other site 398527013582 H-loop/switch region; other site 398527013583 Spherulation-specific family 4; Region: Spherulin4; pfam12138 398527013584 TM1410 hypothetical-related protein; Region: DUF297; cl00997 398527013585 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 398527013586 putative active site [active] 398527013587 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527013588 TPR motif; other site 398527013589 binding surface 398527013590 Tetratricopeptide repeat; Region: TPR_15; pfam13429 398527013591 TolB amino-terminal domain; Region: TolB_N; cl00639 398527013592 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 398527013593 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 398527013594 Predicted membrane protein [Function unknown]; Region: COG4267 398527013595 TM1410 hypothetical-related protein; Region: DUF297; cl00997 398527013596 TM1410 hypothetical-related protein; Region: DUF297; cl00997 398527013597 UDP-glucose 4-epimerase; Region: PLN02240 398527013598 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 398527013599 NAD binding site [chemical binding]; other site 398527013600 homodimer interface [polypeptide binding]; other site 398527013601 active site 398527013602 substrate binding site [chemical binding]; other site 398527013603 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398527013604 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 398527013605 glutaminase active site [active] 398527013606 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 398527013607 dimer interface [polypeptide binding]; other site 398527013608 active site 398527013609 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 398527013610 dimer interface [polypeptide binding]; other site 398527013611 active site 398527013612 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527013613 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527013614 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 398527013615 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 398527013616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 398527013617 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527013618 DNA binding residues [nucleotide binding] 398527013619 dimerization interface [polypeptide binding]; other site 398527013620 LysE type translocator; Region: LysE; cl00565 398527013621 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 398527013622 Helix-turn-helix domains; Region: HTH; cl00088 398527013623 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527013624 dimerization interface [polypeptide binding]; other site 398527013625 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 398527013626 active site clefts [active] 398527013627 zinc binding site [ion binding]; other site 398527013628 dimer interface [polypeptide binding]; other site 398527013629 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398527013630 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527013631 dimerization interface [polypeptide binding]; other site 398527013632 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527013633 dimer interface [polypeptide binding]; other site 398527013634 phosphorylation site [posttranslational modification] 398527013635 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527013636 ATP binding site [chemical binding]; other site 398527013637 Mg2+ binding site [ion binding]; other site 398527013638 G-X-G motif; other site 398527013639 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398527013640 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527013641 active site 398527013642 phosphorylation site [posttranslational modification] 398527013643 intermolecular recognition site; other site 398527013644 dimerization interface [polypeptide binding]; other site 398527013645 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527013646 DNA binding site [nucleotide binding] 398527013647 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398527013648 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527013649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527013650 Helix-turn-helix domains; Region: HTH; cl00088 398527013651 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 398527013652 putative dimerization interface [polypeptide binding]; other site 398527013653 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527013654 Na binding site [ion binding]; other site 398527013655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527013656 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527013657 Cupin domain; Region: Cupin_2; cl09118 398527013658 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 398527013659 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527013660 NAD binding site [chemical binding]; other site 398527013661 catalytic residues [active] 398527013662 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 398527013663 Helix-turn-helix domains; Region: HTH; cl00088 398527013664 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527013665 dimerization interface [polypeptide binding]; other site 398527013666 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398527013667 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398527013668 metal binding site [ion binding]; metal-binding site 398527013669 putative dimer interface [polypeptide binding]; other site 398527013670 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527013671 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527013672 putative substrate translocation pore; other site 398527013673 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527013674 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527013675 putative substrate translocation pore; other site 398527013676 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398527013677 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 398527013678 putative hydrophobic ligand binding site [chemical binding]; other site 398527013679 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527013680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527013681 NAD(P) binding site [chemical binding]; other site 398527013682 active site 398527013683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527013684 Helix-turn-helix domains; Region: HTH; cl00088 398527013685 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527013686 dimerization interface [polypeptide binding]; other site 398527013687 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398527013688 active sites [active] 398527013689 tetramer interface [polypeptide binding]; other site 398527013690 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 398527013691 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527013692 DNA-binding site [nucleotide binding]; DNA binding site 398527013693 UTRA domain; Region: UTRA; cl01230 398527013694 urocanate hydratase; Provisional; Region: PRK05414 398527013695 HutD; Region: HutD; cl01532 398527013696 imidazolonepropionase; Validated; Region: PRK09356 398527013697 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 398527013698 active site 398527013699 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 398527013700 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 398527013701 active site 398527013702 N-formylglutamate amidohydrolase; Region: FGase; cl01522 398527013703 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 398527013704 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 398527013705 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527013706 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 398527013707 dimerization interface [polypeptide binding]; other site 398527013708 ligand binding site [chemical binding]; other site 398527013709 pyridoxamine kinase; Validated; Region: PRK05756 398527013710 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 398527013711 dimer interface [polypeptide binding]; other site 398527013712 pyridoxal binding site [chemical binding]; other site 398527013713 ATP binding site [chemical binding]; other site 398527013714 glycogen synthase; Provisional; Region: glgA; PRK00654 398527013715 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 398527013716 ADP-binding pocket [chemical binding]; other site 398527013717 homodimer interface [polypeptide binding]; other site 398527013718 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 398527013719 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 398527013720 ligand binding site; other site 398527013721 oligomer interface; other site 398527013722 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 398527013723 dimer interface [polypeptide binding]; other site 398527013724 N-terminal domain interface [polypeptide binding]; other site 398527013725 sulfate 1 binding site; other site 398527013726 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527013727 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527013728 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527013729 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398527013730 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 398527013731 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 398527013732 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 398527013733 dimer interface [polypeptide binding]; other site 398527013734 active site 398527013735 non-prolyl cis peptide bond; other site 398527013736 insertion regions; other site 398527013737 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 398527013738 intersubunit interface [polypeptide binding]; other site 398527013739 active site 398527013740 Zn2+ binding site [ion binding]; other site 398527013741 Cysteine dioxygenase type I; Region: CDO_I; cl15835 398527013742 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 398527013743 active site residue [active] 398527013744 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 398527013745 active site residue [active] 398527013746 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 398527013747 active site residue [active] 398527013748 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 398527013749 active site residue [active] 398527013750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527013751 Helix-turn-helix domains; Region: HTH; cl00088 398527013752 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527013753 dimerization interface [polypeptide binding]; other site 398527013754 NMT1-like family; Region: NMT1_2; cl15260 398527013755 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 398527013756 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 398527013757 hypothetical protein; Provisional; Region: PRK10279 398527013758 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 398527013759 active site 398527013760 nucleophile elbow; other site 398527013761 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527013762 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527013763 dimer interface [polypeptide binding]; other site 398527013764 conserved gate region; other site 398527013765 putative PBP binding loops; other site 398527013766 ABC-ATPase subunit interface; other site 398527013767 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527013768 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527013769 dimer interface [polypeptide binding]; other site 398527013770 conserved gate region; other site 398527013771 putative PBP binding loops; other site 398527013772 ABC-ATPase subunit interface; other site 398527013773 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 398527013774 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 398527013775 Walker A/P-loop; other site 398527013776 ATP binding site [chemical binding]; other site 398527013777 Q-loop/lid; other site 398527013778 ABC transporter signature motif; other site 398527013779 Walker B; other site 398527013780 D-loop; other site 398527013781 H-loop/switch region; other site 398527013782 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527013783 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398527013784 conserved cys residue [active] 398527013785 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527013786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527013787 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 398527013788 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527013789 inhibitor-cofactor binding pocket; inhibition site 398527013790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527013791 catalytic residue [active] 398527013792 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 398527013793 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 398527013794 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527013795 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 398527013796 NAD(P) binding site [chemical binding]; other site 398527013797 catalytic residues [active] 398527013798 Succinylarginine dihydrolase; Region: AstB; cl01511 398527013799 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 398527013800 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 398527013801 putative active site [active] 398527013802 Zn binding site [ion binding]; other site 398527013803 glutathionine S-transferase; Provisional; Region: PRK10542 398527013804 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 398527013805 C-terminal domain interface [polypeptide binding]; other site 398527013806 GSH binding site (G-site) [chemical binding]; other site 398527013807 dimer interface [polypeptide binding]; other site 398527013808 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 398527013809 dimer interface [polypeptide binding]; other site 398527013810 N-terminal domain interface [polypeptide binding]; other site 398527013811 substrate binding pocket (H-site) [chemical binding]; other site 398527013812 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527013813 Helix-turn-helix domains; Region: HTH; cl00088 398527013814 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527013815 dimerization interface [polypeptide binding]; other site 398527013816 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398527013817 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527013818 substrate binding pocket [chemical binding]; other site 398527013819 membrane-bound complex binding site; other site 398527013820 hinge residues; other site 398527013821 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 398527013822 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 398527013823 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 398527013824 HDOD domain; Region: HDOD; pfam08668 398527013825 PAS domain; Region: PAS_9; pfam13426 398527013826 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527013827 putative active site [active] 398527013828 heme pocket [chemical binding]; other site 398527013829 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527013830 metal binding site [ion binding]; metal-binding site 398527013831 active site 398527013832 I-site; other site 398527013833 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527013834 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527013835 HDOD domain; Region: HDOD; pfam08668 398527013836 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 398527013837 catalytic triad [active] 398527013838 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398527013839 MULE transposase domain; Region: MULE; pfam10551 398527013840 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 398527013841 Protein export membrane protein; Region: SecD_SecF; cl14618 398527013842 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 398527013843 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 398527013844 Protein export membrane protein; Region: SecD_SecF; cl14618 398527013845 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 398527013846 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527013847 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527013848 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527013849 Helix-turn-helix domains; Region: HTH; cl00088 398527013850 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527013851 Helix-turn-helix domains; Region: HTH; cl00088 398527013852 putative transposase OrfB; Reviewed; Region: PHA02517 398527013853 HTH-like domain; Region: HTH_21; pfam13276 398527013854 Integrase core domain; Region: rve; cl01316 398527013855 Integrase core domain; Region: rve_3; cl15866 398527013856 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527013857 PAS domain S-box; Region: sensory_box; TIGR00229 398527013858 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527013859 putative active site [active] 398527013860 heme pocket [chemical binding]; other site 398527013861 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527013862 metal binding site [ion binding]; metal-binding site 398527013863 active site 398527013864 I-site; other site 398527013865 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527013866 Muconolactone delta-isomerase; Region: MIase; cl01992 398527013867 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 398527013868 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 398527013869 octamer interface [polypeptide binding]; other site 398527013870 active site 398527013871 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398527013872 Helix-turn-helix domains; Region: HTH; cl00088 398527013873 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 398527013874 dimerizarion interface [polypeptide binding]; other site 398527013875 CrgA pocket; other site 398527013876 substrate binding pocket [chemical binding]; other site 398527013877 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 398527013878 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 398527013879 dimer interface [polypeptide binding]; other site 398527013880 active site 398527013881 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 398527013882 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 398527013883 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 398527013884 putative alpha subunit interface [polypeptide binding]; other site 398527013885 putative active site [active] 398527013886 putative substrate binding site [chemical binding]; other site 398527013887 Fe binding site [ion binding]; other site 398527013888 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 398527013889 inter-subunit interface; other site 398527013890 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 398527013891 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527013892 catalytic loop [active] 398527013893 iron binding site [ion binding]; other site 398527013894 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 398527013895 FAD binding pocket [chemical binding]; other site 398527013896 FAD binding motif [chemical binding]; other site 398527013897 phosphate binding motif [ion binding]; other site 398527013898 beta-alpha-beta structure motif; other site 398527013899 NAD binding pocket [chemical binding]; other site 398527013900 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527013901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527013902 NAD(P) binding site [chemical binding]; other site 398527013903 active site 398527013904 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 398527013905 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527013906 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527013907 CrcB-like protein; Region: CRCB; cl09114 398527013908 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 398527013909 CHASE3 domain; Region: CHASE3; cl05000 398527013910 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527013911 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527013912 dimer interface [polypeptide binding]; other site 398527013913 phosphorylation site [posttranslational modification] 398527013914 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527013915 ATP binding site [chemical binding]; other site 398527013916 Mg2+ binding site [ion binding]; other site 398527013917 G-X-G motif; other site 398527013918 intracellular protease, PfpI family; Region: PfpI; TIGR01382 398527013919 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 398527013920 conserved cys residue [active] 398527013921 Helix-turn-helix domains; Region: HTH; cl00088 398527013922 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 398527013923 NADH(P)-binding; Region: NAD_binding_10; pfam13460 398527013924 NAD binding site [chemical binding]; other site 398527013925 substrate binding site [chemical binding]; other site 398527013926 putative active site [active] 398527013927 putative mechanosensitive channel protein; Provisional; Region: PRK11465 398527013928 MASE1; Region: MASE1; pfam05231 398527013929 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398527013930 Cysteine dioxygenase type I; Region: CDO_I; cl15835 398527013931 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527013932 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527013933 putative DNA binding site [nucleotide binding]; other site 398527013934 putative Zn2+ binding site [ion binding]; other site 398527013935 AsnC family; Region: AsnC_trans_reg; pfam01037 398527013936 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 398527013937 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 398527013938 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 398527013939 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 398527013940 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 398527013941 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 398527013942 Family description; Region: UvrD_C_2; cl15862 398527013943 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 398527013944 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527013945 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 398527013946 Family description; Region: UvrD_C_2; cl15862 398527013947 RF-1 domain; Region: RF-1; cl02875 398527013948 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527013949 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 398527013950 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 398527013951 putative active site [active] 398527013952 DDE superfamily endonuclease; Region: DDE_4; cl15789 398527013953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527013954 Helix-turn-helix domains; Region: HTH; cl00088 398527013955 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 398527013956 putative dimerization interface [polypeptide binding]; other site 398527013957 aspartate aminotransferase; Provisional; Region: PRK06108 398527013958 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527013959 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527013960 homodimer interface [polypeptide binding]; other site 398527013961 catalytic residue [active] 398527013962 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 398527013963 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398527013964 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 398527013965 RNA binding surface [nucleotide binding]; other site 398527013966 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 398527013967 probable active site [active] 398527013968 ribosome maturation protein RimP; Reviewed; Region: PRK00092 398527013969 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 398527013970 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 398527013971 Sm1 motif; other site 398527013972 predicted subunit interaction site [polypeptide binding]; other site 398527013973 RNA binding pocket [nucleotide binding]; other site 398527013974 Sm2 motif; other site 398527013975 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 398527013976 NusA N-terminal domain; Region: NusA_N; pfam08529 398527013977 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 398527013978 RNA binding site [nucleotide binding]; other site 398527013979 homodimer interface [polypeptide binding]; other site 398527013980 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 398527013981 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 398527013982 G-X-X-G motif; other site 398527013983 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 398527013984 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 398527013985 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398527013986 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 398527013987 translation initiation factor IF-2; Region: IF-2; TIGR00487 398527013988 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398527013989 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 398527013990 G1 box; other site 398527013991 putative GEF interaction site [polypeptide binding]; other site 398527013992 GTP/Mg2+ binding site [chemical binding]; other site 398527013993 Switch I region; other site 398527013994 G2 box; other site 398527013995 G3 box; other site 398527013996 Switch II region; other site 398527013997 G4 box; other site 398527013998 G5 box; other site 398527013999 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 398527014000 Translation-initiation factor 2; Region: IF-2; pfam11987 398527014001 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 398527014002 Ribosome-binding factor A; Region: RBFA; cl00542 398527014003 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 398527014004 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 398527014005 RNA binding site [nucleotide binding]; other site 398527014006 active site 398527014007 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 398527014008 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527014009 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527014010 putative substrate translocation pore; other site 398527014011 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527014012 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 398527014013 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527014014 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527014015 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527014016 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527014017 Helix-turn-helix domains; Region: HTH; cl00088 398527014018 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 398527014019 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 398527014020 G1 box; other site 398527014021 putative GEF interaction site [polypeptide binding]; other site 398527014022 GTP/Mg2+ binding site [chemical binding]; other site 398527014023 Switch I region; other site 398527014024 G2 box; other site 398527014025 G3 box; other site 398527014026 Switch II region; other site 398527014027 G4 box; other site 398527014028 G5 box; other site 398527014029 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 398527014030 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 398527014031 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 398527014032 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 398527014033 TPP-binding site [chemical binding]; other site 398527014034 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 398527014035 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 398527014036 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398527014037 E3 interaction surface; other site 398527014038 lipoyl attachment site [posttranslational modification]; other site 398527014039 e3 binding domain; Region: E3_binding; pfam02817 398527014040 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 398527014041 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 398527014042 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527014043 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398527014044 Predicted ATPase [General function prediction only]; Region: COG1485 398527014045 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527014046 Walker A/P-loop; other site 398527014047 ATP binding site [chemical binding]; other site 398527014048 Q-loop/lid; other site 398527014049 Walker B; other site 398527014050 D-loop; other site 398527014051 H-loop/switch region; other site 398527014052 DDE superfamily endonuclease; Region: DDE_4; cl15789 398527014053 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 398527014054 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 398527014055 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527014056 Flp/Fap pilin component; Region: Flp_Fap; cl01585 398527014057 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 398527014058 TadE-like protein; Region: TadE; cl10688 398527014059 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398527014060 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 398527014061 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398527014062 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 398527014063 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 398527014064 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 398527014065 ATP binding site [chemical binding]; other site 398527014066 Walker A motif; other site 398527014067 hexamer interface [polypeptide binding]; other site 398527014068 Walker B motif; other site 398527014069 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 398527014070 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 398527014071 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 398527014072 Predicted membrane protein [Function unknown]; Region: COG4655 398527014073 TadE-like protein; Region: TadE; cl10688 398527014074 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 398527014075 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 398527014076 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527014077 Walker A motif; other site 398527014078 ATP binding site [chemical binding]; other site 398527014079 Walker B motif; other site 398527014080 arginine finger; other site 398527014081 Helix-turn-helix domains; Region: HTH; cl00088 398527014082 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 398527014083 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 398527014084 Sm1 motif; other site 398527014085 D1 - D2 interaction site; other site 398527014086 D3 - B interaction site; other site 398527014087 Hfq - Hfq interaction site; other site 398527014088 RNA binding pocket [nucleotide binding]; other site 398527014089 Sm2 motif; other site 398527014090 RNA polymerase sigma factor; Provisional; Region: PRK12511 398527014091 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527014092 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527014093 DNA binding residues [nucleotide binding] 398527014094 Putative zinc-finger; Region: zf-HC2; cl15806 398527014095 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 398527014096 DNA binding domains of BfiI, EcoRII and plant B3 proteins; Region: BfiI_C_EcoRII_N_B3; cl15242 398527014097 DNA binding site [nucleotide binding] 398527014098 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 398527014099 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398527014100 FAD binding domain; Region: FAD_binding_4; pfam01565 398527014101 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 398527014102 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 398527014103 AMP-binding enzyme; Region: AMP-binding; cl15778 398527014104 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527014105 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 398527014106 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398527014107 dimer interface [polypeptide binding]; other site 398527014108 active site 398527014109 enoyl-CoA hydratase; Region: PLN02864 398527014110 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 398527014111 active site 2 [active] 398527014112 active site 1 [active] 398527014113 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 398527014114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527014115 NAD(P) binding site [chemical binding]; other site 398527014116 active site 398527014117 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 398527014118 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527014119 active site 398527014120 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 398527014121 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527014122 Helix-turn-helix domains; Region: HTH; cl00088 398527014123 putative sialic acid transporter; Region: 2A0112; TIGR00891 398527014124 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527014125 putative substrate translocation pore; other site 398527014126 MAPEG family; Region: MAPEG; cl09190 398527014127 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398527014128 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527014129 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 398527014130 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 398527014131 putative ion selectivity filter; other site 398527014132 putative pore gating glutamate residue; other site 398527014133 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 398527014134 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 398527014135 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 398527014136 Trp docking motif [polypeptide binding]; other site 398527014137 putative active site [active] 398527014138 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 398527014139 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398527014140 substrate binding site [chemical binding]; other site 398527014141 activation loop (A-loop); other site 398527014142 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527014143 Predicted ATPase [General function prediction only]; Region: COG3899 398527014144 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398527014145 GAF domain; Region: GAF; cl15785 398527014146 PAS domain S-box; Region: sensory_box; TIGR00229 398527014147 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527014148 putative active site [active] 398527014149 heme pocket [chemical binding]; other site 398527014150 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527014151 dimer interface [polypeptide binding]; other site 398527014152 phosphorylation site [posttranslational modification] 398527014153 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527014154 ATP binding site [chemical binding]; other site 398527014155 Mg2+ binding site [ion binding]; other site 398527014156 G-X-G motif; other site 398527014157 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398527014158 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527014159 active site 398527014160 phosphorylation site [posttranslational modification] 398527014161 intermolecular recognition site; other site 398527014162 dimerization interface [polypeptide binding]; other site 398527014163 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527014164 DNA binding residues [nucleotide binding] 398527014165 dimerization interface [polypeptide binding]; other site 398527014166 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 398527014167 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 398527014168 catalytic residues [active] 398527014169 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398527014170 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527014171 Helix-turn-helix domains; Region: HTH; cl00088 398527014172 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527014173 putative effector binding pocket; other site 398527014174 dimerization interface [polypeptide binding]; other site 398527014175 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527014176 classical (c) SDRs; Region: SDR_c; cd05233 398527014177 NAD(P) binding site [chemical binding]; other site 398527014178 active site 398527014179 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 398527014180 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527014181 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398527014182 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527014183 substrate binding site [chemical binding]; other site 398527014184 oxyanion hole (OAH) forming residues; other site 398527014185 trimer interface [polypeptide binding]; other site 398527014186 Epoxide hydrolase N terminus; Region: EHN; pfam06441 398527014187 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398527014188 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527014189 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 398527014190 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527014191 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527014192 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527014193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527014194 putative substrate translocation pore; other site 398527014195 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527014196 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527014197 active site 398527014198 catalytic tetrad [active] 398527014199 Response regulator receiver domain; Region: Response_reg; pfam00072 398527014200 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527014201 active site 398527014202 phosphorylation site [posttranslational modification] 398527014203 intermolecular recognition site; other site 398527014204 dimerization interface [polypeptide binding]; other site 398527014205 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 398527014206 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 398527014207 ribonuclease R; Region: RNase_R; TIGR02063 398527014208 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 398527014209 RNB domain; Region: RNB; pfam00773 398527014210 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 398527014211 RNA binding site [nucleotide binding]; other site 398527014212 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 398527014213 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 398527014214 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 398527014215 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 398527014216 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398527014217 active site 398527014218 dimer interface [polypeptide binding]; other site 398527014219 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527014220 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 398527014221 putative ADP-binding pocket [chemical binding]; other site 398527014222 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 398527014223 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 398527014224 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527014225 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 398527014226 Bacterial sugar transferase; Region: Bac_transf; cl00939 398527014227 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398527014228 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 398527014229 ligand binding site [chemical binding]; other site 398527014230 flexible hinge region; other site 398527014231 Helix-turn-helix domains; Region: HTH; cl00088 398527014232 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 398527014233 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 398527014234 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 398527014235 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 398527014236 motif 1; other site 398527014237 dimer interface [polypeptide binding]; other site 398527014238 active site 398527014239 motif 2; other site 398527014240 motif 3; other site 398527014241 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527014242 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527014243 active site 398527014244 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527014245 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527014246 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527014247 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 398527014248 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527014249 S-adenosylmethionine binding site [chemical binding]; other site 398527014250 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527014251 active site 398527014252 Cupin domain; Region: Cupin_2; cl09118 398527014253 Flavin Reductases; Region: FlaRed; cl00801 398527014254 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527014255 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527014256 DNA-binding site [nucleotide binding]; DNA binding site 398527014257 FCD domain; Region: FCD; cl11656 398527014258 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398527014259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527014260 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 398527014261 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 398527014262 Catalytic site [active] 398527014263 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 398527014264 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527014265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527014266 dimer interface [polypeptide binding]; other site 398527014267 conserved gate region; other site 398527014268 putative PBP binding loops; other site 398527014269 ABC-ATPase subunit interface; other site 398527014270 cystine transporter subunit; Provisional; Region: PRK11260 398527014271 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527014272 substrate binding pocket [chemical binding]; other site 398527014273 membrane-bound complex binding site; other site 398527014274 hinge residues; other site 398527014275 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 398527014276 quinone interaction residues [chemical binding]; other site 398527014277 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 398527014278 active site 398527014279 catalytic residues [active] 398527014280 FMN binding site [chemical binding]; other site 398527014281 substrate binding site [chemical binding]; other site 398527014282 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 398527014283 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 398527014284 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527014285 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527014286 Ribosomal protein S27a; Region: Ribosomal_S27; cl00876 398527014287 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 398527014288 nudix motif; other site 398527014289 Domain of unknown function (DUF336); Region: DUF336; cl01249 398527014290 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 398527014291 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398527014292 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398527014293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527014294 NAD(P) binding site [chemical binding]; other site 398527014295 active site 398527014296 Helix-turn-helix domains; Region: HTH; cl00088 398527014297 WHG domain; Region: WHG; pfam13305 398527014298 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 398527014299 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527014300 substrate binding site [chemical binding]; other site 398527014301 oxyanion hole (OAH) forming residues; other site 398527014302 trimer interface [polypeptide binding]; other site 398527014303 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 398527014304 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 398527014305 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 398527014306 active site 398527014307 dimer interface [polypeptide binding]; other site 398527014308 non-prolyl cis peptide bond; other site 398527014309 insertion regions; other site 398527014310 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527014311 dimer interface [polypeptide binding]; other site 398527014312 conserved gate region; other site 398527014313 putative PBP binding loops; other site 398527014314 ABC-ATPase subunit interface; other site 398527014315 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 398527014316 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 398527014317 Walker A/P-loop; other site 398527014318 ATP binding site [chemical binding]; other site 398527014319 Q-loop/lid; other site 398527014320 ABC transporter signature motif; other site 398527014321 Walker B; other site 398527014322 D-loop; other site 398527014323 H-loop/switch region; other site 398527014324 TOBE domain; Region: TOBE_2; cl01440 398527014325 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 398527014326 dimer interface [polypeptide binding]; other site 398527014327 ligand binding site [chemical binding]; other site 398527014328 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 398527014329 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 398527014330 FMN binding site [chemical binding]; other site 398527014331 active site 398527014332 catalytic residues [active] 398527014333 substrate binding site [chemical binding]; other site 398527014334 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527014335 TPR repeat; Region: TPR_11; pfam13414 398527014336 binding surface 398527014337 TPR motif; other site 398527014338 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527014339 TPR motif; other site 398527014340 binding surface 398527014341 TPR repeat; Region: TPR_11; pfam13414 398527014342 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 398527014343 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 398527014344 AAA domain; Region: AAA_18; pfam13238 398527014345 ligand-binding site [chemical binding]; other site 398527014346 UPF0126 domain; Region: UPF0126; pfam03458 398527014347 Predicted membrane protein [Function unknown]; Region: COG2860 398527014348 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 398527014349 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527014350 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527014351 active site 398527014352 catalytic tetrad [active] 398527014353 citrate-proton symporter; Provisional; Region: PRK15075 398527014354 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527014355 putative substrate translocation pore; other site 398527014356 hypothetical protein; Provisional; Region: PRK07079 398527014357 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 398527014358 metal binding site [ion binding]; metal-binding site 398527014359 putative dimer interface [polypeptide binding]; other site 398527014360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527014361 Helix-turn-helix domains; Region: HTH; cl00088 398527014362 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527014363 dimerization interface [polypeptide binding]; other site 398527014364 ABC-2 type transporter; Region: ABC2_membrane; cl11417 398527014365 nodulation ABC transporter NodI; Provisional; Region: PRK13537 398527014366 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 398527014367 Walker A/P-loop; other site 398527014368 ATP binding site [chemical binding]; other site 398527014369 Q-loop/lid; other site 398527014370 ABC transporter signature motif; other site 398527014371 Walker B; other site 398527014372 D-loop; other site 398527014373 H-loop/switch region; other site 398527014374 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527014375 Ligand Binding Site [chemical binding]; other site 398527014376 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 398527014377 LexA repressor; Validated; Region: PRK00215 398527014378 Helix-turn-helix domains; Region: HTH; cl00088 398527014379 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 398527014380 Catalytic site [active] 398527014381 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527014382 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398527014383 sulfate transport protein; Provisional; Region: cysT; CHL00187 398527014384 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527014385 dimer interface [polypeptide binding]; other site 398527014386 conserved gate region; other site 398527014387 putative PBP binding loops; other site 398527014388 ABC-ATPase subunit interface; other site 398527014389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527014390 dimer interface [polypeptide binding]; other site 398527014391 conserved gate region; other site 398527014392 putative PBP binding loops; other site 398527014393 ABC-ATPase subunit interface; other site 398527014394 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 398527014395 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 398527014396 Walker A/P-loop; other site 398527014397 ATP binding site [chemical binding]; other site 398527014398 Q-loop/lid; other site 398527014399 ABC transporter signature motif; other site 398527014400 Walker B; other site 398527014401 D-loop; other site 398527014402 H-loop/switch region; other site 398527014403 TOBE-like domain; Region: TOBE_3; pfam12857 398527014404 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 398527014405 Helix-turn-helix domains; Region: HTH; cl00088 398527014406 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 398527014407 substrate binding site [chemical binding]; other site 398527014408 dimerization interface [polypeptide binding]; other site 398527014409 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 398527014410 active site 398527014411 homodimer interface [polypeptide binding]; other site 398527014412 homotetramer interface [polypeptide binding]; other site 398527014413 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 398527014414 tartronate semialdehyde reductase; Provisional; Region: PRK15059 398527014415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527014416 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 398527014417 glyoxylate carboligase; Provisional; Region: PRK11269 398527014418 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527014419 PYR/PP interface [polypeptide binding]; other site 398527014420 dimer interface [polypeptide binding]; other site 398527014421 TPP binding site [chemical binding]; other site 398527014422 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527014423 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 398527014424 TPP-binding site [chemical binding]; other site 398527014425 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527014426 Helix-turn-helix domains; Region: HTH; cl00088 398527014427 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527014428 putative effector binding pocket; other site 398527014429 dimerization interface [polypeptide binding]; other site 398527014430 RNA polymerase sigma factor; Provisional; Region: PRK12533 398527014431 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527014432 Putative zinc-finger; Region: zf-HC2; cl15806 398527014433 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 398527014434 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 398527014435 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 398527014436 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 398527014437 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 398527014438 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 398527014439 replicative DNA helicase; Provisional; Region: PRK07004 398527014440 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 398527014441 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 398527014442 Walker A motif; other site 398527014443 ATP binding site [chemical binding]; other site 398527014444 Walker B motif; other site 398527014445 DNA binding loops [nucleotide binding] 398527014446 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 398527014447 Phosphate transporter family; Region: PHO4; cl00396 398527014448 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527014449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527014450 NAD(P) binding site [chemical binding]; other site 398527014451 active site 398527014452 NlpC/P60 family; Region: NLPC_P60; cl11438 398527014453 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 398527014454 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 398527014455 putative active site [active] 398527014456 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527014457 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 398527014458 catalytic triad [active] 398527014459 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 398527014460 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 398527014461 putative active site [active] 398527014462 putative catalytic site [active] 398527014463 putative Zn binding site [ion binding]; other site 398527014464 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 398527014465 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 398527014466 NAD binding site [chemical binding]; other site 398527014467 substrate binding site [chemical binding]; other site 398527014468 active site 398527014469 putative formyltransferase; Provisional; Region: PRK06988 398527014470 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 398527014471 active site 398527014472 substrate binding site [chemical binding]; other site 398527014473 cosubstrate binding site; other site 398527014474 catalytic site [active] 398527014475 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 398527014476 active site 398527014477 hexamer interface [polypeptide binding]; other site 398527014478 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 398527014479 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 398527014480 Ligand binding site; other site 398527014481 Putative Catalytic site; other site 398527014482 DXD motif; other site 398527014483 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398527014484 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 398527014485 inhibitor-cofactor binding pocket; inhibition site 398527014486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527014487 catalytic residue [active] 398527014488 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 398527014489 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 398527014490 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 398527014491 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 398527014492 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527014493 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527014494 homodimer interface [polypeptide binding]; other site 398527014495 catalytic residue [active] 398527014496 homoserine dehydrogenase; Provisional; Region: PRK06349 398527014497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527014498 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 398527014499 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 398527014500 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 398527014501 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 398527014502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527014503 catalytic residue [active] 398527014504 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 398527014505 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 398527014506 dimer interface [polypeptide binding]; other site 398527014507 putative functional site; other site 398527014508 putative MPT binding site; other site 398527014509 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 398527014510 MoaE interaction surface [polypeptide binding]; other site 398527014511 MoeB interaction surface [polypeptide binding]; other site 398527014512 thiocarboxylated glycine; other site 398527014513 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 398527014514 MoaE homodimer interface [polypeptide binding]; other site 398527014515 MoaD interaction [polypeptide binding]; other site 398527014516 active site residues [active] 398527014517 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 398527014518 apolar tunnel; other site 398527014519 heme binding site [chemical binding]; other site 398527014520 dimerization interface [polypeptide binding]; other site 398527014521 Helix-turn-helix domains; Region: HTH; cl00088 398527014522 Rrf2 family protein; Region: rrf2_super; TIGR00738 398527014523 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 398527014524 Clp amino terminal domain; Region: Clp_N; pfam02861 398527014525 Clp amino terminal domain; Region: Clp_N; pfam02861 398527014526 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527014527 Walker A motif; other site 398527014528 ATP binding site [chemical binding]; other site 398527014529 Walker B motif; other site 398527014530 arginine finger; other site 398527014531 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527014532 Walker A motif; other site 398527014533 ATP binding site [chemical binding]; other site 398527014534 Walker B motif; other site 398527014535 arginine finger; other site 398527014536 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 398527014537 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 398527014538 Protein of unknown function, DUF655; Region: DUF655; pfam04919 398527014539 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 398527014540 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398527014541 DNA binding residues [nucleotide binding] 398527014542 putative dimer interface [polypeptide binding]; other site 398527014543 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527014544 multidrug efflux protein; Reviewed; Region: PRK01766 398527014545 MatE; Region: MatE; cl10513 398527014546 MatE; Region: MatE; cl10513 398527014547 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 398527014548 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 398527014549 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 398527014550 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527014551 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527014552 putative substrate translocation pore; other site 398527014553 Helix-Turn-Helix DNA binding domain of the YfmP transcription regulator; Region: HTH_YfmP; cd04774 398527014554 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398527014555 DNA binding residues [nucleotide binding] 398527014556 putative dimer interface [polypeptide binding]; other site 398527014557 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 398527014558 transcription termination factor Rho; Provisional; Region: rho; PRK09376 398527014559 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 398527014560 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 398527014561 RNA binding site [nucleotide binding]; other site 398527014562 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 398527014563 multimer interface [polypeptide binding]; other site 398527014564 Walker A motif; other site 398527014565 ATP binding site [chemical binding]; other site 398527014566 Walker B motif; other site 398527014567 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 398527014568 catalytic residues [active] 398527014569 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 398527014570 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527014571 Walker A motif; other site 398527014572 ATP binding site [chemical binding]; other site 398527014573 Walker B motif; other site 398527014574 arginine finger; other site 398527014575 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 398527014576 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 398527014577 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 398527014578 recombination protein RecR; Reviewed; Region: recR; PRK00076 398527014579 RecR protein; Region: RecR; pfam02132 398527014580 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 398527014581 putative active site [active] 398527014582 putative metal-binding site [ion binding]; other site 398527014583 tetramer interface [polypeptide binding]; other site 398527014584 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527014585 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527014586 NMT1-like family; Region: NMT1_2; cl15260 398527014587 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398527014588 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398527014589 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 398527014590 Walker A/P-loop; other site 398527014591 ATP binding site [chemical binding]; other site 398527014592 Q-loop/lid; other site 398527014593 ABC transporter signature motif; other site 398527014594 Walker B; other site 398527014595 D-loop; other site 398527014596 H-loop/switch region; other site 398527014597 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398527014598 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 398527014599 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398527014600 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 398527014601 NAD(P) binding site [chemical binding]; other site 398527014602 Survival protein SurE; Region: SurE; cl00448 398527014603 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 398527014604 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 398527014605 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527014606 S-adenosylmethionine binding site [chemical binding]; other site 398527014607 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 398527014608 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398527014609 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 398527014610 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398527014611 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527014612 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527014613 DNA binding residues [nucleotide binding] 398527014614 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 398527014615 active site 398527014616 catalytic site [active] 398527014617 substrate binding site [chemical binding]; other site 398527014618 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 398527014619 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 398527014620 TRAM domain; Region: TRAM; cl01282 398527014621 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527014622 S-adenosylmethionine binding site [chemical binding]; other site 398527014623 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 398527014624 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398527014625 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 398527014626 RNA binding surface [nucleotide binding]; other site 398527014627 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398527014628 active site 398527014629 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 398527014630 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 398527014631 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 398527014632 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 398527014633 putative acyltransferase; Provisional; Region: PRK05790 398527014634 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398527014635 dimer interface [polypeptide binding]; other site 398527014636 active site 398527014637 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 398527014638 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398527014639 NAD(P) binding site [chemical binding]; other site 398527014640 homotetramer interface [polypeptide binding]; other site 398527014641 homodimer interface [polypeptide binding]; other site 398527014642 active site 398527014643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 398527014644 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 398527014645 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 398527014646 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 398527014647 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 398527014648 FMN binding site [chemical binding]; other site 398527014649 active site 398527014650 catalytic residues [active] 398527014651 substrate binding site [chemical binding]; other site 398527014652 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 398527014653 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398527014654 TRAM domain; Region: TRAM; cl01282 398527014655 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 398527014656 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398527014657 substrate binding site [chemical binding]; other site 398527014658 ATP binding site [chemical binding]; other site 398527014659 beta-ketothiolase; Provisional; Region: PRK09051 398527014660 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398527014661 dimer interface [polypeptide binding]; other site 398527014662 active site 398527014663 cystathionine beta-lyase; Provisional; Region: PRK07050 398527014664 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527014665 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527014666 catalytic residue [active] 398527014667 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 398527014668 phosphoserine phosphatase SerB; Region: serB; TIGR00338 398527014669 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527014670 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 398527014671 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 398527014672 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 398527014673 putative DNA binding site [nucleotide binding]; other site 398527014674 putative homodimer interface [polypeptide binding]; other site 398527014675 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 398527014676 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 398527014677 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 398527014678 active site 398527014679 DNA binding site [nucleotide binding] 398527014680 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 398527014681 DNA binding site [nucleotide binding] 398527014682 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 398527014683 nucleotide binding site [chemical binding]; other site 398527014684 transcriptional activator TtdR; Provisional; Region: PRK09801 398527014685 Helix-turn-helix domains; Region: HTH; cl00088 398527014686 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527014687 putative effector binding pocket; other site 398527014688 dimerization interface [polypeptide binding]; other site 398527014689 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 398527014690 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 398527014691 putative NAD(P) binding site [chemical binding]; other site 398527014692 dimer interface [polypeptide binding]; other site 398527014693 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 398527014694 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 398527014695 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527014696 Walker A/P-loop; other site 398527014697 ATP binding site [chemical binding]; other site 398527014698 Q-loop/lid; other site 398527014699 ABC transporter signature motif; other site 398527014700 Walker B; other site 398527014701 D-loop; other site 398527014702 H-loop/switch region; other site 398527014703 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 398527014704 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 398527014705 AsmA-like C-terminal region; Region: AsmA_2; cl15864 398527014706 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527014707 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527014708 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527014709 dimer interface [polypeptide binding]; other site 398527014710 phosphorylation site [posttranslational modification] 398527014711 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527014712 ATP binding site [chemical binding]; other site 398527014713 Mg2+ binding site [ion binding]; other site 398527014714 G-X-G motif; other site 398527014715 Response regulator receiver domain; Region: Response_reg; pfam00072 398527014716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527014717 active site 398527014718 phosphorylation site [posttranslational modification] 398527014719 intermolecular recognition site; other site 398527014720 dimerization interface [polypeptide binding]; other site 398527014721 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398527014722 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527014723 active site 398527014724 phosphorylation site [posttranslational modification] 398527014725 intermolecular recognition site; other site 398527014726 dimerization interface [polypeptide binding]; other site 398527014727 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527014728 PAS fold; Region: PAS_3; pfam08447 398527014729 putative active site [active] 398527014730 heme pocket [chemical binding]; other site 398527014731 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527014732 dimer interface [polypeptide binding]; other site 398527014733 phosphorylation site [posttranslational modification] 398527014734 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527014735 ATP binding site [chemical binding]; other site 398527014736 Mg2+ binding site [ion binding]; other site 398527014737 G-X-G motif; other site 398527014738 Response regulator receiver domain; Region: Response_reg; pfam00072 398527014739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527014740 active site 398527014741 phosphorylation site [posttranslational modification] 398527014742 intermolecular recognition site; other site 398527014743 dimerization interface [polypeptide binding]; other site 398527014744 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 398527014745 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 398527014746 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 398527014747 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 398527014748 tetramer interface [polypeptide binding]; other site 398527014749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527014750 catalytic residue [active] 398527014751 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 398527014752 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 398527014753 metal binding site [ion binding]; metal-binding site 398527014754 putative dimer interface [polypeptide binding]; other site 398527014755 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 398527014756 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 398527014757 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527014758 ATP binding site [chemical binding]; other site 398527014759 putative Mg++ binding site [ion binding]; other site 398527014760 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527014761 nucleotide binding region [chemical binding]; other site 398527014762 ATP-binding site [chemical binding]; other site 398527014763 TRCF domain; Region: TRCF; cl04088 398527014764 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 398527014765 substrate binding site; other site 398527014766 dimer interface; other site 398527014767 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 398527014768 homotrimer interaction site [polypeptide binding]; other site 398527014769 zinc binding site [ion binding]; other site 398527014770 CDP-binding sites; other site 398527014771 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398527014772 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 398527014773 dimer interface [polypeptide binding]; other site 398527014774 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398527014775 catalytic triad [active] 398527014776 peroxidatic and resolving cysteines [active] 398527014777 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527014778 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527014779 dimer interface [polypeptide binding]; other site 398527014780 phosphorylation site [posttranslational modification] 398527014781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527014782 ATP binding site [chemical binding]; other site 398527014783 Mg2+ binding site [ion binding]; other site 398527014784 G-X-G motif; other site 398527014785 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398527014786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527014787 active site 398527014788 phosphorylation site [posttranslational modification] 398527014789 intermolecular recognition site; other site 398527014790 dimerization interface [polypeptide binding]; other site 398527014791 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527014792 DNA binding site [nucleotide binding] 398527014793 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 398527014794 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 398527014795 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 398527014796 active site lid residues [active] 398527014797 substrate binding pocket [chemical binding]; other site 398527014798 catalytic residues [active] 398527014799 substrate-Mg2+ binding site; other site 398527014800 aspartate-rich region 1; other site 398527014801 aspartate-rich region 2; other site 398527014802 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 398527014803 Helix-turn-helix domains; Region: HTH; cl00088 398527014804 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 398527014805 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527014806 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 398527014807 putative substrate binding pocket [chemical binding]; other site 398527014808 putative dimerization interface [polypeptide binding]; other site 398527014809 short chain dehydrogenase; Provisional; Region: PRK06181 398527014810 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 398527014811 NADP binding site [chemical binding]; other site 398527014812 homodimer interface [polypeptide binding]; other site 398527014813 active site 398527014814 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 398527014815 homotrimer interaction site [polypeptide binding]; other site 398527014816 putative active site [active] 398527014817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527014818 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527014819 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 398527014820 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 398527014821 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527014822 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527014823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527014824 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527014825 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527014826 dimer interface [polypeptide binding]; other site 398527014827 conserved gate region; other site 398527014828 putative PBP binding loops; other site 398527014829 ABC-ATPase subunit interface; other site 398527014830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527014831 dimer interface [polypeptide binding]; other site 398527014832 conserved gate region; other site 398527014833 putative PBP binding loops; other site 398527014834 ABC-ATPase subunit interface; other site 398527014835 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527014836 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527014837 Walker A/P-loop; other site 398527014838 ATP binding site [chemical binding]; other site 398527014839 Q-loop/lid; other site 398527014840 ABC transporter signature motif; other site 398527014841 Walker B; other site 398527014842 D-loop; other site 398527014843 H-loop/switch region; other site 398527014844 TOBE domain; Region: TOBE_2; cl01440 398527014845 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398527014846 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527014847 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398527014848 Helix-turn-helix domains; Region: HTH; cl00088 398527014849 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527014850 dimerization interface [polypeptide binding]; other site 398527014851 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527014852 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 398527014853 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 398527014854 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 398527014855 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 398527014856 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 398527014857 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527014858 Helix-turn-helix domains; Region: HTH; cl00088 398527014859 Helix-turn-helix domains; Region: HTH; cl00088 398527014860 Glycerate kinase family; Region: Gly_kinase; cl00841 398527014861 trigger factor; Provisional; Region: tig; PRK01490 398527014862 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 398527014863 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 398527014864 Clp protease; Region: CLP_protease; pfam00574 398527014865 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 398527014866 oligomer interface [polypeptide binding]; other site 398527014867 active site residues [active] 398527014868 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 398527014869 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 398527014870 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527014871 Walker A motif; other site 398527014872 ATP binding site [chemical binding]; other site 398527014873 Walker B motif; other site 398527014874 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 398527014875 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 398527014876 Found in ATP-dependent protease La (LON); Region: LON; smart00464 398527014877 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527014878 Walker A motif; other site 398527014879 ATP binding site [chemical binding]; other site 398527014880 Walker B motif; other site 398527014881 arginine finger; other site 398527014882 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 398527014883 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 398527014884 IHF dimer interface [polypeptide binding]; other site 398527014885 IHF - DNA interface [nucleotide binding]; other site 398527014886 SurA N-terminal domain; Region: SurA_N_3; cl07813 398527014887 periplasmic folding chaperone; Provisional; Region: PRK10788 398527014888 PPIC-type PPIASE domain; Region: Rotamase; cl08278 398527014889 PPIC-type PPIASE domain; Region: Rotamase; cl08278 398527014890 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 398527014891 active site 398527014892 catalytic triad [active] 398527014893 oxyanion hole [active] 398527014894 switch loop; other site 398527014895 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 398527014896 Q-loop/lid; other site 398527014897 ABC transporter signature motif; other site 398527014898 Walker B; other site 398527014899 D-loop; other site 398527014900 H-loop/switch region; other site 398527014901 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 398527014902 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 398527014903 active site 398527014904 dimer interface [polypeptide binding]; other site 398527014905 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 398527014906 dimer interface [polypeptide binding]; other site 398527014907 active site 398527014908 putative carbohydrate kinase; Provisional; Region: PRK10565 398527014909 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 398527014910 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 398527014911 putative substrate binding site [chemical binding]; other site 398527014912 putative ATP binding site [chemical binding]; other site 398527014913 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398527014914 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 398527014915 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 398527014916 dimerization interface [polypeptide binding]; other site 398527014917 ATP binding site [chemical binding]; other site 398527014918 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 398527014919 dimerization interface [polypeptide binding]; other site 398527014920 ATP binding site [chemical binding]; other site 398527014921 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 398527014922 putative active site [active] 398527014923 catalytic triad [active] 398527014924 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527014925 HipA N-terminal domain; Region: Couple_hipA; cl11853 398527014926 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398527014927 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398527014928 SurA N-terminal domain; Region: SurA_N_3; cl07813 398527014929 PPIC-type PPIASE domain; Region: Rotamase; cl08278 398527014930 BolA-like protein; Region: BolA; cl00386 398527014931 Intracellular septation protein A; Region: IspA; cl01098 398527014932 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 398527014933 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 398527014934 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 398527014935 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 398527014936 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 398527014937 AMP-binding enzyme; Region: AMP-binding; cl15778 398527014938 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527014939 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527014940 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 398527014941 substrate binding site [chemical binding]; other site 398527014942 oxyanion hole (OAH) forming residues; other site 398527014943 trimer interface [polypeptide binding]; other site 398527014944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527014945 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398527014946 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398527014947 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 398527014948 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398527014949 dimer interface [polypeptide binding]; other site 398527014950 active site 398527014951 Late embryogenesis abundant protein; Region: LEA_2; cl12118 398527014952 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527014953 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527014954 DNA-binding site [nucleotide binding]; DNA binding site 398527014955 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527014956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527014957 homodimer interface [polypeptide binding]; other site 398527014958 catalytic residue [active] 398527014959 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398527014960 CoenzymeA binding site [chemical binding]; other site 398527014961 subunit interaction site [polypeptide binding]; other site 398527014962 PHB binding site; other site 398527014963 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 398527014964 Prostaglandin dehydrogenases; Region: PGDH; cd05288 398527014965 NAD(P) binding site [chemical binding]; other site 398527014966 substrate binding site [chemical binding]; other site 398527014967 dimer interface [polypeptide binding]; other site 398527014968 hypothetical protein; Provisional; Region: PRK06194 398527014969 classical (c) SDRs; Region: SDR_c; cd05233 398527014970 NAD(P) binding site [chemical binding]; other site 398527014971 active site 398527014972 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527014973 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398527014974 substrate binding pocket [chemical binding]; other site 398527014975 NRDE protein; Region: NRDE; cl01315 398527014976 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 398527014977 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 398527014978 YceG-like family; Region: YceG; pfam02618 398527014979 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 398527014980 dimerization interface [polypeptide binding]; other site 398527014981 thymidylate kinase; Validated; Region: tmk; PRK00698 398527014982 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 398527014983 TMP-binding site; other site 398527014984 ATP-binding site [chemical binding]; other site 398527014985 DNA polymerase III subunit delta'; Validated; Region: PRK06964 398527014986 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527014987 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 398527014988 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527014989 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398527014990 active site 398527014991 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398527014992 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 398527014993 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398527014994 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398527014995 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 398527014996 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 398527014997 active site 398527014998 homotetramer interface [polypeptide binding]; other site 398527014999 Predicted ATPase [General function prediction only]; Region: COG4637 398527015000 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527015001 Walker A/P-loop; other site 398527015002 ATP binding site [chemical binding]; other site 398527015003 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 398527015004 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527015005 putative ADP-binding pocket [chemical binding]; other site 398527015006 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 398527015007 Domain of unknown function DUF221; Region: DUF221; pfam02714 398527015008 hypothetical protein; Provisional; Region: PRK11505 398527015009 psiF repeat; Region: PsiF_repeat; pfam07769 398527015010 psiF repeat; Region: PsiF_repeat; pfam07769 398527015011 YCII-related domain; Region: YCII; cl00999 398527015012 DDE superfamily endonuclease; Region: DDE_4; cl15789 398527015013 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 398527015014 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 398527015015 Substrate binding site; other site 398527015016 Cupin domain; Region: Cupin_2; cl09118 398527015017 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 398527015018 Bacterial sugar transferase; Region: Bac_transf; cl00939 398527015019 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 398527015020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015021 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398527015022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015023 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398527015024 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398527015025 active site 398527015026 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398527015027 polysaccharide export protein Wza; Provisional; Region: PRK15078 398527015028 tyrosine kinase; Provisional; Region: PRK11519 398527015029 Chain length determinant protein; Region: Wzz; cl15801 398527015030 Chain length determinant protein; Region: Wzz; cl15801 398527015031 Chain length determinant protein; Region: Wzz; cl15801 398527015032 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 398527015033 P-loop; other site 398527015034 Magnesium ion binding site [ion binding]; other site 398527015035 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 398527015036 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527015037 active site 398527015038 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527015039 O-Antigen ligase; Region: Wzy_C; cl04850 398527015040 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 398527015041 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 398527015042 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 398527015043 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 398527015044 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 398527015045 NADP-binding site; other site 398527015046 homotetramer interface [polypeptide binding]; other site 398527015047 substrate binding site [chemical binding]; other site 398527015048 homodimer interface [polypeptide binding]; other site 398527015049 active site 398527015050 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 398527015051 active site 398527015052 catalytic triad [active] 398527015053 oxyanion hole [active] 398527015054 OpgC protein; Region: OpgC_C; cl00792 398527015055 MatE; Region: MatE; cl10513 398527015056 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527015057 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 398527015058 putative ADP-binding pocket [chemical binding]; other site 398527015059 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527015060 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 398527015061 OpgC protein; Region: OpgC_C; cl00792 398527015062 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398527015063 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 398527015064 active site 398527015065 tetramer interface; other site 398527015066 PAAR motif; Region: PAAR_motif; cl15808 398527015067 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 398527015068 active site 398527015069 Domain of unknown function (DUF336); Region: DUF336; cl01249 398527015070 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 398527015071 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 398527015072 MOSC domain; Region: MOSC; pfam03473 398527015073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 398527015074 active site 398527015075 dimerization interface [polypeptide binding]; other site 398527015076 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 398527015077 nitrite reductase subunit NirD; Provisional; Region: PRK14989 398527015078 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527015079 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 398527015080 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 398527015081 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398527015082 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 398527015083 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 398527015084 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 398527015085 [4Fe-4S] binding site [ion binding]; other site 398527015086 molybdopterin cofactor binding site; other site 398527015087 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 398527015088 molybdopterin cofactor binding site; other site 398527015089 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 398527015090 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527015091 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 398527015092 FAD binding pocket [chemical binding]; other site 398527015093 FAD binding motif [chemical binding]; other site 398527015094 catalytic residues [active] 398527015095 NAD binding pocket [chemical binding]; other site 398527015096 phosphate binding motif [ion binding]; other site 398527015097 beta-alpha-beta structure motif; other site 398527015098 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 398527015099 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 398527015100 MgtC family; Region: MgtC; pfam02308 398527015101 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527015102 trimer interface [polypeptide binding]; other site 398527015103 eyelet of channel; other site 398527015104 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 398527015105 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527015106 NAD binding site [chemical binding]; other site 398527015107 catalytic residues [active] 398527015108 substrate binding site [chemical binding]; other site 398527015109 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015110 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527015111 galactonate dehydratase; Provisional; Region: PRK14017 398527015112 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 398527015113 active site pocket [active] 398527015114 choline dehydrogenase; Validated; Region: PRK02106 398527015115 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527015116 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527015117 Helix-turn-helix domains; Region: HTH; cl00088 398527015118 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527015119 dimerization interface [polypeptide binding]; other site 398527015120 substrate binding pocket [chemical binding]; other site 398527015121 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398527015122 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527015123 NAD(P) binding site [chemical binding]; other site 398527015124 catalytic residues [active] 398527015125 tyramine oxidase; Provisional; Region: tynA; PRK11504 398527015126 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 398527015127 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 398527015128 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 398527015129 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398527015130 Helix-turn-helix domain; Region: HTH_18; pfam12833 398527015131 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 398527015132 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527015133 trimer interface [polypeptide binding]; other site 398527015134 eyelet of channel; other site 398527015135 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527015136 Helix-turn-helix domains; Region: HTH; cl00088 398527015137 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 398527015138 putative dimerization interface [polypeptide binding]; other site 398527015139 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 398527015140 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527015141 S-adenosylmethionine binding site [chemical binding]; other site 398527015142 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527015143 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527015144 DNA-binding site [nucleotide binding]; DNA binding site 398527015145 FCD domain; Region: FCD; cl11656 398527015146 aminotransferase; Validated; Region: PRK07046 398527015147 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527015148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527015149 catalytic residue [active] 398527015150 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 398527015151 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398527015152 short chain dehydrogenase; Provisional; Region: PRK06180 398527015153 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398527015154 NADP binding site [chemical binding]; other site 398527015155 active site 398527015156 steroid binding site; other site 398527015157 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 398527015158 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398527015159 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527015160 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 398527015161 putative C-terminal domain interface [polypeptide binding]; other site 398527015162 putative GSH binding site (G-site) [chemical binding]; other site 398527015163 putative dimer interface [polypeptide binding]; other site 398527015164 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 398527015165 putative N-terminal domain interface [polypeptide binding]; other site 398527015166 putative dimer interface [polypeptide binding]; other site 398527015167 putative substrate binding pocket (H-site) [chemical binding]; other site 398527015168 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527015169 Helix-turn-helix domains; Region: HTH; cl00088 398527015170 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 398527015171 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 398527015172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015173 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 398527015174 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 398527015175 Transglycosylase; Region: Transgly; cl07896 398527015176 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527015177 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015178 putative substrate translocation pore; other site 398527015179 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015180 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 398527015181 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 398527015182 Cupin domain; Region: Cupin_2; cl09118 398527015183 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527015184 Helix-turn-helix domains; Region: HTH; cl00088 398527015185 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527015186 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527015187 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 398527015188 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527015189 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527015190 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527015191 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015192 putative substrate translocation pore; other site 398527015193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015194 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 398527015195 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 398527015196 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 398527015197 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527015198 NAD binding site [chemical binding]; other site 398527015199 metal binding site [ion binding]; metal-binding site 398527015200 active site 398527015201 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 398527015202 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 398527015203 Cytochrome c; Region: Cytochrom_C; cl11414 398527015204 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 398527015205 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 398527015206 D-pathway; other site 398527015207 Putative ubiquinol binding site [chemical binding]; other site 398527015208 Low-spin heme (heme b) binding site [chemical binding]; other site 398527015209 Putative water exit pathway; other site 398527015210 Binuclear center (heme o3/CuB) [ion binding]; other site 398527015211 K-pathway; other site 398527015212 Putative proton exit pathway; other site 398527015213 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 398527015214 Subunit I/III interface [polypeptide binding]; other site 398527015215 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398527015216 Cytochrome c; Region: Cytochrom_C; cl11414 398527015217 thiamine pyrophosphate protein; Provisional; Region: PRK08273 398527015218 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 398527015219 PYR/PP interface [polypeptide binding]; other site 398527015220 dimer interface [polypeptide binding]; other site 398527015221 tetramer interface [polypeptide binding]; other site 398527015222 TPP binding site [chemical binding]; other site 398527015223 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527015224 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 398527015225 TPP-binding site [chemical binding]; other site 398527015226 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 398527015227 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 398527015228 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 398527015229 Int/Topo IB signature motif; other site 398527015230 Dehydratase family; Region: ILVD_EDD; cl00340 398527015231 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 398527015232 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 398527015233 Predicted membrane protein [Function unknown]; Region: COG2119 398527015234 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 398527015235 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 398527015236 Low affinity iron permease; Region: Iron_permease; cl12096 398527015237 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 398527015238 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 398527015239 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398527015240 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527015241 substrate binding pocket [chemical binding]; other site 398527015242 membrane-bound complex binding site; other site 398527015243 hinge residues; other site 398527015244 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 398527015245 dimanganese center [ion binding]; other site 398527015246 Helix-turn-helix domains; Region: HTH; cl00088 398527015247 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 398527015248 putative dimerization interface [polypeptide binding]; other site 398527015249 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527015250 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 398527015251 inhibitor-cofactor binding pocket; inhibition site 398527015252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527015253 catalytic residue [active] 398527015254 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 398527015255 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 398527015256 substrate binding site [chemical binding]; other site 398527015257 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 398527015258 substrate binding site [chemical binding]; other site 398527015259 ligand binding site [chemical binding]; other site 398527015260 Helix-turn-helix domains; Region: HTH; cl00088 398527015261 short chain dehydrogenase; Provisional; Region: PRK06179 398527015262 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398527015263 NADP binding site [chemical binding]; other site 398527015264 active site 398527015265 steroid binding site; other site 398527015266 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398527015267 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 398527015268 putative NAD(P) binding site [chemical binding]; other site 398527015269 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527015270 Helix-turn-helix domains; Region: HTH; cl00088 398527015271 Sulfatase; Region: Sulfatase; cl10460 398527015272 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398527015273 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398527015274 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015275 putative substrate translocation pore; other site 398527015276 D-lactate dehydrogenase; Provisional; Region: PRK11183 398527015277 FAD binding domain; Region: FAD_binding_4; pfam01565 398527015278 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 398527015279 Helix-turn-helix domains; Region: HTH; cl00088 398527015280 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 398527015281 putative dimerization interface [polypeptide binding]; other site 398527015282 putative substrate binding pocket [chemical binding]; other site 398527015283 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527015284 Ligand Binding Site [chemical binding]; other site 398527015285 GYD domain; Region: GYD; cl01743 398527015286 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 398527015287 Tim44-like domain; Region: Tim44; cl09208 398527015288 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 398527015289 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 398527015290 Helix-turn-helix domains; Region: HTH; cl00088 398527015291 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527015292 dimerization interface [polypeptide binding]; other site 398527015293 transaminase; Validated; Region: PRK07324 398527015294 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527015295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527015296 homodimer interface [polypeptide binding]; other site 398527015297 catalytic residue [active] 398527015298 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398527015299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015301 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398527015302 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527015303 substrate binding pocket [chemical binding]; other site 398527015304 membrane-bound complex binding site; other site 398527015305 hinge residues; other site 398527015306 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 398527015307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 398527015309 YheO-like PAS domain; Region: PAS_6; pfam08348 398527015310 Helix-turn-helix domains; Region: HTH; cl00088 398527015311 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398527015312 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527015313 Walker A motif; other site 398527015314 ATP binding site [chemical binding]; other site 398527015315 Walker B motif; other site 398527015316 arginine finger; other site 398527015317 Helix-turn-helix domains; Region: HTH; cl00088 398527015318 Protein of unknown function (DUF917); Region: DUF917; pfam06032 398527015319 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398527015320 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 398527015321 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 398527015322 dimer interface [polypeptide binding]; other site 398527015323 active site 398527015324 heme binding site [chemical binding]; other site 398527015325 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 398527015326 Phospholipid methyltransferase; Region: PEMT; cl00763 398527015327 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 398527015328 nudix motif; other site 398527015329 CHASE2 domain; Region: CHASE2; cl01732 398527015330 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527015331 ligand binding site [chemical binding]; other site 398527015332 FecR protein; Region: FecR; pfam04773 398527015333 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527015334 benzoate transport; Region: 2A0115; TIGR00895 398527015335 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015336 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015337 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 398527015338 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527015339 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 398527015340 active site 398527015341 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 398527015342 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 398527015343 NMT1-like family; Region: NMT1_2; cl15260 398527015344 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398527015345 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398527015346 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 398527015347 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527015348 dimer interface [polypeptide binding]; other site 398527015349 putative PBP binding loops; other site 398527015350 ABC-ATPase subunit interface; other site 398527015351 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398527015352 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 398527015353 Walker A/P-loop; other site 398527015354 ATP binding site [chemical binding]; other site 398527015355 Q-loop/lid; other site 398527015356 ABC transporter signature motif; other site 398527015357 Walker B; other site 398527015358 D-loop; other site 398527015359 H-loop/switch region; other site 398527015360 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 398527015361 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 398527015362 active site 398527015363 non-prolyl cis peptide bond; other site 398527015364 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398527015365 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 398527015366 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398527015367 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 398527015368 putative active site [active] 398527015369 catalytic site [active] 398527015370 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 398527015371 putative active site [active] 398527015372 catalytic site [active] 398527015373 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 398527015374 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527015375 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 398527015376 putative ADP-binding pocket [chemical binding]; other site 398527015377 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 398527015378 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398527015379 conserved cys residue [active] 398527015380 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527015381 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527015382 DNA-binding site [nucleotide binding]; DNA binding site 398527015383 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527015384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527015385 homodimer interface [polypeptide binding]; other site 398527015386 catalytic residue [active] 398527015387 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 398527015388 intersubunit interface [polypeptide binding]; other site 398527015389 active site 398527015390 Zn2+ binding site [ion binding]; other site 398527015391 prolyl-tRNA synthetase; Provisional; Region: PRK12325 398527015392 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 398527015393 motif 1; other site 398527015394 dimer interface [polypeptide binding]; other site 398527015395 active site 398527015396 motif 2; other site 398527015397 motif 3; other site 398527015398 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 398527015399 anticodon binding site; other site 398527015400 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 398527015401 homotrimer interaction site [polypeptide binding]; other site 398527015402 putative active site [active] 398527015403 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 398527015404 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 398527015405 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 398527015406 mce related protein; Region: MCE; pfam02470 398527015407 mce related protein; Region: MCE; pfam02470 398527015408 mce related protein; Region: MCE; pfam02470 398527015409 Organic solvent tolerance protein; Region: OstA_C; pfam04453 398527015410 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 398527015411 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527015412 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527015413 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527015414 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527015415 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527015416 Surface antigen; Region: Bac_surface_Ag; cl03097 398527015417 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 398527015418 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527015419 PYR/PP interface [polypeptide binding]; other site 398527015420 dimer interface [polypeptide binding]; other site 398527015421 TPP binding site [chemical binding]; other site 398527015422 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527015423 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 398527015424 TPP-binding site [chemical binding]; other site 398527015425 dimer interface [polypeptide binding]; other site 398527015426 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 398527015427 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 398527015428 TPP-binding site [chemical binding]; other site 398527015429 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 398527015430 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527015431 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398527015432 conserved cys residue [active] 398527015433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527015434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527015435 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 398527015436 active site 398527015437 SUMO-1 interface [polypeptide binding]; other site 398527015438 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527015439 Helix-turn-helix domains; Region: HTH; cl00088 398527015440 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 398527015441 putative effector binding pocket; other site 398527015442 putative dimerization interface [polypeptide binding]; other site 398527015443 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 398527015444 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527015445 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015446 putative substrate translocation pore; other site 398527015447 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 398527015448 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527015449 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527015450 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527015451 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 398527015452 catalytic residue [active] 398527015453 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527015454 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527015455 dimer interface [polypeptide binding]; other site 398527015456 phosphorylation site [posttranslational modification] 398527015457 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527015458 ATP binding site [chemical binding]; other site 398527015459 Mg2+ binding site [ion binding]; other site 398527015460 G-X-G motif; other site 398527015461 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398527015462 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527015463 active site 398527015464 phosphorylation site [posttranslational modification] 398527015465 intermolecular recognition site; other site 398527015466 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527015467 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527015468 active site 398527015469 phosphorylation site [posttranslational modification] 398527015470 intermolecular recognition site; other site 398527015471 dimerization interface [polypeptide binding]; other site 398527015472 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527015473 DNA binding residues [nucleotide binding] 398527015474 dimerization interface [polypeptide binding]; other site 398527015475 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 398527015476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015477 Helix-turn-helix domains; Region: HTH; cl00088 398527015478 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 398527015479 putative effector binding pocket; other site 398527015480 putative dimerization interface [polypeptide binding]; other site 398527015481 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 398527015482 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 398527015483 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 398527015484 DNA-K related protein; Region: DUF3731; pfam12531 398527015485 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527015486 classical (c) SDRs; Region: SDR_c; cd05233 398527015487 NAD(P) binding site [chemical binding]; other site 398527015488 active site 398527015489 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527015490 Helix-turn-helix domains; Region: HTH; cl00088 398527015491 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 398527015492 putative effector binding pocket; other site 398527015493 putative dimerization interface [polypeptide binding]; other site 398527015494 GAF domain; Region: GAF; cl15785 398527015495 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527015496 metal binding site [ion binding]; metal-binding site 398527015497 active site 398527015498 I-site; other site 398527015499 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527015500 Helix-turn-helix domains; Region: HTH; cl00088 398527015501 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527015502 putative effector binding pocket; other site 398527015503 dimerization interface [polypeptide binding]; other site 398527015504 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 398527015505 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527015506 active site 398527015507 motif I; other site 398527015508 motif II; other site 398527015509 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 398527015510 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527015511 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527015512 catalytic residue [active] 398527015513 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 398527015514 Helix-turn-helix domains; Region: HTH; cl00088 398527015515 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527015516 dimerization interface [polypeptide binding]; other site 398527015517 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527015518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015519 NAD(P) binding site [chemical binding]; other site 398527015520 active site 398527015521 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 398527015522 Helix-turn-helix domains; Region: HTH; cl00088 398527015523 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 398527015524 dimerization interface [polypeptide binding]; other site 398527015525 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 398527015526 active site clefts [active] 398527015527 zinc binding site [ion binding]; other site 398527015528 dimer interface [polypeptide binding]; other site 398527015529 cyanate hydratase; Validated; Region: PRK02866 398527015530 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 398527015531 oligomer interface [polypeptide binding]; other site 398527015532 active site 398527015533 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527015534 Helix-turn-helix domains; Region: HTH; cl00088 398527015535 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 398527015536 putative dimerization interface [polypeptide binding]; other site 398527015537 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398527015538 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 398527015539 FMN-binding pocket [chemical binding]; other site 398527015540 flavin binding motif; other site 398527015541 phosphate binding motif [ion binding]; other site 398527015542 beta-alpha-beta structure motif; other site 398527015543 NAD binding pocket [chemical binding]; other site 398527015544 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527015545 catalytic loop [active] 398527015546 iron binding site [ion binding]; other site 398527015547 Muconolactone delta-isomerase; Region: MIase; cl01992 398527015548 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 398527015549 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 398527015550 dimer interface [polypeptide binding]; other site 398527015551 active site 398527015552 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 398527015553 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 398527015554 octamer interface [polypeptide binding]; other site 398527015555 active site 398527015556 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398527015557 Helix-turn-helix domains; Region: HTH; cl00088 398527015558 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 398527015559 dimerizarion interface [polypeptide binding]; other site 398527015560 CrgA pocket; other site 398527015561 substrate binding pocket [chemical binding]; other site 398527015562 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 398527015563 Helix-turn-helix domains; Region: HTH; cl00088 398527015564 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 398527015565 substrate binding pocket [chemical binding]; other site 398527015566 dimerization interface [polypeptide binding]; other site 398527015567 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 398527015568 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 398527015569 iron-sulfur cluster [ion binding]; other site 398527015570 [2Fe-2S] cluster binding site [ion binding]; other site 398527015571 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 398527015572 putative alpha subunit interface [polypeptide binding]; other site 398527015573 putative active site [active] 398527015574 putative substrate binding site [chemical binding]; other site 398527015575 Fe binding site [ion binding]; other site 398527015576 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 398527015577 inter-subunit interface; other site 398527015578 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 398527015579 active site 1 [active] 398527015580 dimer interface [polypeptide binding]; other site 398527015581 hexamer interface [polypeptide binding]; other site 398527015582 active site 2 [active] 398527015583 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 398527015584 active site 1 [active] 398527015585 dimer interface [polypeptide binding]; other site 398527015586 hexamer interface [polypeptide binding]; other site 398527015587 active site 2 [active] 398527015588 shikimate transporter; Provisional; Region: PRK09952 398527015589 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015590 putative substrate translocation pore; other site 398527015591 PAS domain; Region: PAS_9; pfam13426 398527015592 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527015593 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398527015594 putative active site [active] 398527015595 heme pocket [chemical binding]; other site 398527015596 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527015597 dimer interface [polypeptide binding]; other site 398527015598 phosphorylation site [posttranslational modification] 398527015599 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527015600 ATP binding site [chemical binding]; other site 398527015601 Mg2+ binding site [ion binding]; other site 398527015602 G-X-G motif; other site 398527015603 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398527015604 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527015605 active site 398527015606 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527015607 Amidase; Region: Amidase; cl11426 398527015608 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527015609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015610 NAD(P) binding site [chemical binding]; other site 398527015611 active site 398527015612 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398527015613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527015614 active site 398527015615 phosphorylation site [posttranslational modification] 398527015616 intermolecular recognition site; other site 398527015617 dimerization interface [polypeptide binding]; other site 398527015618 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527015619 DNA binding residues [nucleotide binding] 398527015620 dimerization interface [polypeptide binding]; other site 398527015621 Flavin Reductases; Region: FlaRed; cl00801 398527015622 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 398527015623 Helix-turn-helix domains; Region: HTH; cl00088 398527015624 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527015625 dimerization interface [polypeptide binding]; other site 398527015626 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527015627 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015628 putative substrate translocation pore; other site 398527015629 amidase; Provisional; Region: PRK07486 398527015630 Amidase; Region: Amidase; cl11426 398527015631 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527015632 trimer interface [polypeptide binding]; other site 398527015633 eyelet of channel; other site 398527015634 Bacterial Ig-like domain; Region: Big_5; cl01012 398527015635 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 398527015636 NMT1-like family; Region: NMT1_2; cl15260 398527015637 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 398527015638 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 398527015639 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527015640 Helix-turn-helix domains; Region: HTH; cl00088 398527015641 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527015642 dimerization interface [polypeptide binding]; other site 398527015643 proline/glycine betaine transporter; Provisional; Region: PRK10642 398527015644 choline dehydrogenase; Validated; Region: PRK02106 398527015645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015646 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527015647 enoyl-CoA hydratase; Provisional; Region: PRK06688 398527015648 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527015649 substrate binding site [chemical binding]; other site 398527015650 oxyanion hole (OAH) forming residues; other site 398527015651 trimer interface [polypeptide binding]; other site 398527015652 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 398527015653 AMP-binding enzyme; Region: AMP-binding; cl15778 398527015654 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527015655 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 398527015656 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527015657 catalytic loop [active] 398527015658 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527015659 iron binding site [ion binding]; other site 398527015660 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527015661 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 398527015662 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 398527015663 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398527015664 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527015665 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527015666 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 398527015667 putative hydrophobic ligand binding site [chemical binding]; other site 398527015668 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 398527015669 Flavoprotein; Region: Flavoprotein; cl08021 398527015670 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 398527015671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527015672 Helix-turn-helix domains; Region: HTH; cl00088 398527015673 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527015674 dimerization interface [polypeptide binding]; other site 398527015675 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527015676 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527015677 dimer interface [polypeptide binding]; other site 398527015678 phosphorylation site [posttranslational modification] 398527015679 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527015680 ATP binding site [chemical binding]; other site 398527015681 Mg2+ binding site [ion binding]; other site 398527015682 G-X-G motif; other site 398527015683 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 398527015684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527015685 active site 398527015686 phosphorylation site [posttranslational modification] 398527015687 intermolecular recognition site; other site 398527015688 dimerization interface [polypeptide binding]; other site 398527015689 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527015690 DNA binding site [nucleotide binding] 398527015691 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398527015692 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398527015693 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527015694 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 398527015695 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 398527015696 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 398527015697 ligand binding site; other site 398527015698 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 398527015699 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 398527015700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527015701 active site 398527015702 phosphorylation site [posttranslational modification] 398527015703 intermolecular recognition site; other site 398527015704 dimerization interface [polypeptide binding]; other site 398527015705 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527015706 DNA binding site [nucleotide binding] 398527015707 sensor protein QseC; Provisional; Region: PRK10337 398527015708 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398527015709 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527015710 ATP binding site [chemical binding]; other site 398527015711 G-X-G motif; other site 398527015712 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 398527015713 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 398527015714 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 398527015715 ligand binding site; other site 398527015716 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 398527015717 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 398527015718 B12 binding site [chemical binding]; other site 398527015719 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527015720 FeS/SAM binding site; other site 398527015721 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 398527015722 DNA-binding site [nucleotide binding]; DNA binding site 398527015723 RNA-binding motif; other site 398527015724 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527015725 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398527015726 tetramerization interface [polypeptide binding]; other site 398527015727 NAD(P) binding site [chemical binding]; other site 398527015728 catalytic residues [active] 398527015729 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398527015730 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527015731 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 398527015732 KduI/IolB family; Region: KduI; cl01508 398527015733 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 398527015734 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 398527015735 NADP binding site [chemical binding]; other site 398527015736 homodimer interface [polypeptide binding]; other site 398527015737 active site 398527015738 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 398527015739 Helix-turn-helix domains; Region: HTH; cl00088 398527015740 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527015741 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398527015742 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 398527015743 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 398527015744 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 398527015745 metal binding site [ion binding]; metal-binding site 398527015746 substrate binding pocket [chemical binding]; other site 398527015747 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015748 D-galactonate transporter; Region: 2A0114; TIGR00893 398527015749 putative substrate translocation pore; other site 398527015750 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 398527015751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015752 NAD(P) binding site [chemical binding]; other site 398527015753 active site 398527015754 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527015755 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527015756 DNA-binding site [nucleotide binding]; DNA binding site 398527015757 FCD domain; Region: FCD; cl11656 398527015758 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527015759 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 398527015760 putative C-terminal domain interface [polypeptide binding]; other site 398527015761 putative GSH binding site (G-site) [chemical binding]; other site 398527015762 putative dimer interface [polypeptide binding]; other site 398527015763 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398527015764 N-terminal domain interface [polypeptide binding]; other site 398527015765 dimer interface [polypeptide binding]; other site 398527015766 substrate binding pocket (H-site) [chemical binding]; other site 398527015767 Chromate transporter; Region: Chromate_transp; pfam02417 398527015768 Chromate transporter; Region: Chromate_transp; pfam02417 398527015769 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 398527015770 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527015771 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 398527015772 active site 398527015773 metal binding site [ion binding]; metal-binding site 398527015774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 398527015775 NMT1-like family; Region: NMT1_2; cl15260 398527015776 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398527015777 NMT1-like family; Region: NMT1_2; cl15260 398527015778 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398527015779 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527015780 DNA-binding site [nucleotide binding]; DNA binding site 398527015781 FCD domain; Region: FCD; cl11656 398527015782 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527015783 trimer interface [polypeptide binding]; other site 398527015784 eyelet of channel; other site 398527015785 putative chaperone; Provisional; Region: PRK11678 398527015786 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398527015787 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 398527015788 P-loop; other site 398527015789 Magnesium ion binding site [ion binding]; other site 398527015790 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 398527015791 Magnesium ion binding site [ion binding]; other site 398527015792 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 398527015793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015794 threonine dehydratase; Reviewed; Region: PRK09224 398527015795 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 398527015796 tetramer interface [polypeptide binding]; other site 398527015797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527015798 catalytic residue [active] 398527015799 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 398527015800 putative Ile/Val binding site [chemical binding]; other site 398527015801 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 398527015802 putative Ile/Val binding site [chemical binding]; other site 398527015803 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 398527015804 Predicted integral membrane protein [Function unknown]; Region: COG0392 398527015805 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 398527015806 Uncharacterized conserved protein [Function unknown]; Region: COG2898 398527015807 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 398527015808 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015809 putative transporter; Provisional; Region: PRK10504 398527015810 putative substrate translocation pore; other site 398527015811 Protein of unknown function (DUF421); Region: DUF421; cl00990 398527015812 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527015813 active site 398527015814 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527015815 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527015816 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527015817 PAS domain; Region: PAS_9; pfam13426 398527015818 putative active site [active] 398527015819 heme pocket [chemical binding]; other site 398527015820 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398527015821 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527015822 putative active site [active] 398527015823 heme pocket [chemical binding]; other site 398527015824 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527015825 dimer interface [polypeptide binding]; other site 398527015826 phosphorylation site [posttranslational modification] 398527015827 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527015828 ATP binding site [chemical binding]; other site 398527015829 Mg2+ binding site [ion binding]; other site 398527015830 G-X-G motif; other site 398527015831 Response regulator receiver domain; Region: Response_reg; pfam00072 398527015832 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527015833 active site 398527015834 phosphorylation site [posttranslational modification] 398527015835 intermolecular recognition site; other site 398527015836 dimerization interface [polypeptide binding]; other site 398527015837 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 398527015838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015839 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527015840 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 398527015841 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 398527015842 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527015843 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527015844 dimer interface [polypeptide binding]; other site 398527015845 putative CheW interface [polypeptide binding]; other site 398527015846 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527015847 Helix-turn-helix domains; Region: HTH; cl00088 398527015848 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527015849 dimerization interface [polypeptide binding]; other site 398527015850 putative transporter; Provisional; Region: PRK10504 398527015851 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015852 putative substrate translocation pore; other site 398527015853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015854 short chain dehydrogenase; Provisional; Region: PRK06197 398527015855 NAD(P) binding site [chemical binding]; other site 398527015856 active site 398527015857 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527015858 Helix-turn-helix domains; Region: HTH; cl00088 398527015859 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527015860 putative effector binding pocket; other site 398527015861 dimerization interface [polypeptide binding]; other site 398527015862 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398527015863 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398527015864 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 398527015865 active site 398527015866 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 398527015867 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015868 putative substrate translocation pore; other site 398527015869 SpoVR family protein; Provisional; Region: PRK11767 398527015870 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 398527015871 Uncharacterized conserved protein [Function unknown]; Region: COG2718 398527015872 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 398527015873 PrkA family serine protein kinase; Provisional; Region: PRK15455 398527015874 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527015875 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 398527015876 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527015877 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398527015878 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 398527015879 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527015880 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527015881 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527015882 dimer interface [polypeptide binding]; other site 398527015883 putative CheW interface [polypeptide binding]; other site 398527015884 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527015885 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527015886 DNA binding site [nucleotide binding] 398527015887 domain linker motif; other site 398527015888 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398527015889 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 398527015890 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527015891 TM-ABC transporter signature motif; other site 398527015892 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527015893 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527015894 Walker A/P-loop; other site 398527015895 ATP binding site [chemical binding]; other site 398527015896 Q-loop/lid; other site 398527015897 ABC transporter signature motif; other site 398527015898 Walker B; other site 398527015899 D-loop; other site 398527015900 H-loop/switch region; other site 398527015901 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527015902 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 398527015903 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527015904 ligand binding site [chemical binding]; other site 398527015905 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 398527015906 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 398527015907 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 398527015908 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 398527015909 AAA domain; Region: AAA_33; pfam13671 398527015910 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527015911 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 398527015912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015913 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 398527015914 Helix-turn-helix domains; Region: HTH; cl00088 398527015915 AsnC family; Region: AsnC_trans_reg; pfam01037 398527015916 Helix-turn-helix domains; Region: HTH; cl00088 398527015917 LysR family transcriptional regulator; Provisional; Region: PRK14997 398527015918 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 398527015919 putative effector binding pocket; other site 398527015920 putative dimerization interface [polypeptide binding]; other site 398527015921 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 398527015922 PGDYG protein; Region: PGDYG; pfam14083 398527015923 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 398527015924 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 398527015925 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527015926 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527015927 DNA binding site [nucleotide binding] 398527015928 domain linker motif; other site 398527015929 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 398527015930 putative dimerization interface [polypeptide binding]; other site 398527015931 putative ligand binding site [chemical binding]; other site 398527015932 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 398527015933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015934 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527015935 D-galactonate transporter; Region: 2A0114; TIGR00893 398527015936 putative substrate translocation pore; other site 398527015937 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398527015938 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 398527015939 substrate binding site [chemical binding]; other site 398527015940 ATP binding site [chemical binding]; other site 398527015941 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 398527015942 Helix-turn-helix domains; Region: HTH; cl00088 398527015943 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 398527015944 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 398527015945 putative dimerization interface [polypeptide binding]; other site 398527015946 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 398527015947 glutathione s-transferase; Provisional; Region: PTZ00057 398527015948 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 398527015949 GSH binding site (G-site) [chemical binding]; other site 398527015950 C-terminal domain interface [polypeptide binding]; other site 398527015951 dimer interface [polypeptide binding]; other site 398527015952 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 398527015953 dimer interface [polypeptide binding]; other site 398527015954 N-terminal domain interface [polypeptide binding]; other site 398527015955 substrate binding pocket (H-site) [chemical binding]; other site 398527015956 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 398527015957 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 398527015958 Cl- selectivity filter; other site 398527015959 Cl- binding residues [ion binding]; other site 398527015960 pore gating glutamate residue; other site 398527015961 dimer interface [polypeptide binding]; other site 398527015962 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 398527015963 Phospholipase B; Region: Phospholip_B; pfam04916 398527015964 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 398527015965 Cupin domain; Region: Cupin_2; cl09118 398527015966 Helix-turn-helix domain; Region: HTH_18; pfam12833 398527015967 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527015968 Cupin domain; Region: Cupin_2; cl09118 398527015969 transcriptional regulator; Provisional; Region: PRK10632 398527015970 Helix-turn-helix domains; Region: HTH; cl00088 398527015971 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527015972 putative effector binding pocket; other site 398527015973 dimerization interface [polypeptide binding]; other site 398527015974 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527015975 Helix-turn-helix domains; Region: HTH; cl00088 398527015976 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398527015977 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527015978 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398527015979 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527015980 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 398527015981 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398527015982 putative acyl-acceptor binding pocket; other site 398527015983 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 398527015984 Transglycosylase; Region: Transgly; cl07896 398527015985 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527015986 PspA/IM30 family; Region: PspA_IM30; pfam04012 398527015987 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398527015988 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 398527015989 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 398527015990 Helix-turn-helix domains; Region: HTH; cl00088 398527015991 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 398527015992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527015993 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527015994 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527015995 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527015996 dimer interface [polypeptide binding]; other site 398527015997 putative CheW interface [polypeptide binding]; other site 398527015998 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398527015999 MULE transposase domain; Region: MULE; pfam10551 398527016000 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527016001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527016002 dimer interface [polypeptide binding]; other site 398527016003 conserved gate region; other site 398527016004 putative PBP binding loops; other site 398527016005 ABC-ATPase subunit interface; other site 398527016006 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 398527016007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527016008 dimer interface [polypeptide binding]; other site 398527016009 conserved gate region; other site 398527016010 putative PBP binding loops; other site 398527016011 ABC-ATPase subunit interface; other site 398527016012 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 398527016013 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527016014 Walker A/P-loop; other site 398527016015 ATP binding site [chemical binding]; other site 398527016016 Q-loop/lid; other site 398527016017 ABC transporter signature motif; other site 398527016018 Walker B; other site 398527016019 D-loop; other site 398527016020 H-loop/switch region; other site 398527016021 TOBE domain; Region: TOBE_2; cl01440 398527016022 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 398527016023 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527016024 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 398527016025 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398527016026 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 398527016027 dimerization interface [polypeptide binding]; other site 398527016028 substrate binding site [chemical binding]; other site 398527016029 active site 398527016030 calcium binding site [ion binding]; other site 398527016031 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 398527016032 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 398527016033 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398527016034 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 398527016035 FMN binding site [chemical binding]; other site 398527016036 substrate binding site [chemical binding]; other site 398527016037 putative catalytic residue [active] 398527016038 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 398527016039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527016040 Walker A/P-loop; other site 398527016041 ATP binding site [chemical binding]; other site 398527016042 Q-loop/lid; other site 398527016043 ABC transporter signature motif; other site 398527016044 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 398527016045 Walker B; other site 398527016046 D-loop; other site 398527016047 H-loop/switch region; other site 398527016048 ABC transporter; Region: ABC_tran_2; pfam12848 398527016049 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 398527016050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527016051 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398527016052 Dodecin; Region: Dodecin; cl01328 398527016053 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 398527016054 putative ligand binding site [chemical binding]; other site 398527016055 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 398527016056 TM-ABC transporter signature motif; other site 398527016057 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 398527016058 TM-ABC transporter signature motif; other site 398527016059 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 398527016060 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527016061 Walker A/P-loop; other site 398527016062 ATP binding site [chemical binding]; other site 398527016063 Q-loop/lid; other site 398527016064 ABC transporter signature motif; other site 398527016065 Walker B; other site 398527016066 D-loop; other site 398527016067 H-loop/switch region; other site 398527016068 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527016069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527016070 Helix-turn-helix domains; Region: HTH; cl00088 398527016071 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 398527016072 putative substrate binding pocket [chemical binding]; other site 398527016073 putative dimerization interface [polypeptide binding]; other site 398527016074 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 398527016075 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 398527016076 active site 398527016077 putative substrate binding pocket [chemical binding]; other site 398527016078 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 398527016079 active site 398527016080 homotetramer interface [polypeptide binding]; other site 398527016081 Predicted membrane protein [Function unknown]; Region: COG3748 398527016082 Protein of unknown function (DUF989); Region: DUF989; pfam06181 398527016083 Cytochrome c; Region: Cytochrom_C; cl11414 398527016084 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 398527016085 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 398527016086 allantoicase; Provisional; Region: PRK13257 398527016087 Allantoicase repeat; Region: Allantoicase; pfam03561 398527016088 Allantoicase repeat; Region: Allantoicase; pfam03561 398527016089 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 398527016090 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 398527016091 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 398527016092 active site 398527016093 catalytic site [active] 398527016094 tetramer interface [polypeptide binding]; other site 398527016095 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398527016096 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 398527016097 Na binding site [ion binding]; other site 398527016098 putative substrate binding site [chemical binding]; other site 398527016099 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527016100 DNA-binding site [nucleotide binding]; DNA binding site 398527016101 FCD domain; Region: FCD; cl11656 398527016102 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 398527016103 dimer interface [polypeptide binding]; other site 398527016104 catalytic triad [active] 398527016105 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 398527016106 nucleoside/Zn binding site; other site 398527016107 dimer interface [polypeptide binding]; other site 398527016108 catalytic motif [active] 398527016109 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 398527016110 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 398527016111 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 398527016112 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 398527016113 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527016114 FeS/SAM binding site; other site 398527016115 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 398527016116 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 398527016117 Fe-S cluster binding site [ion binding]; other site 398527016118 active site 398527016119 OsmC-like protein; Region: OsmC; cl00767 398527016120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527016121 NADH(P)-binding; Region: NAD_binding_10; pfam13460 398527016122 NAD(P) binding site [chemical binding]; other site 398527016123 active site 398527016124 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527016125 Helix-turn-helix domains; Region: HTH; cl00088 398527016126 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527016127 putative effector binding pocket; other site 398527016128 dimerization interface [polypeptide binding]; other site 398527016129 Cupin domain; Region: Cupin_2; cl09118 398527016130 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527016131 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 398527016132 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527016133 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527016134 Protein of unknown function DUF72; Region: DUF72; cl00777 398527016135 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 398527016136 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 398527016137 putative phosphate binding site [ion binding]; other site 398527016138 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 398527016139 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 398527016140 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 398527016141 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527016142 S-adenosylmethionine binding site [chemical binding]; other site 398527016143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527016144 NAD(P) binding site [chemical binding]; other site 398527016145 Phasin protein; Region: Phasin_2; cl11491 398527016146 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527016147 metal binding site [ion binding]; metal-binding site 398527016148 active site 398527016149 I-site; other site 398527016150 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527016151 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527016152 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 398527016153 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 398527016154 metal binding site [ion binding]; metal-binding site 398527016155 putative dimer interface [polypeptide binding]; other site 398527016156 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 398527016157 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 398527016158 homotrimer interaction site [polypeptide binding]; other site 398527016159 putative active site [active] 398527016160 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 398527016161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527016162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527016163 Helix-turn-helix domains; Region: HTH; cl00088 398527016164 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 398527016165 putative substrate binding pocket [chemical binding]; other site 398527016166 dimerization interface [polypeptide binding]; other site 398527016167 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398527016168 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 398527016169 [2Fe-2S] cluster binding site [ion binding]; other site 398527016170 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_1; cd08885 398527016171 putative alpha subunit interface [polypeptide binding]; other site 398527016172 putative active site [active] 398527016173 putative substrate binding site [chemical binding]; other site 398527016174 Fe binding site [ion binding]; other site 398527016175 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527016176 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 398527016177 Walker A/P-loop; other site 398527016178 ATP binding site [chemical binding]; other site 398527016179 Q-loop/lid; other site 398527016180 ABC transporter signature motif; other site 398527016181 Walker B; other site 398527016182 D-loop; other site 398527016183 H-loop/switch region; other site 398527016184 TOBE domain; Region: TOBE_2; cl01440 398527016185 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 398527016186 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527016187 dimer interface [polypeptide binding]; other site 398527016188 conserved gate region; other site 398527016189 putative PBP binding loops; other site 398527016190 ABC-ATPase subunit interface; other site 398527016191 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527016192 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527016193 dimer interface [polypeptide binding]; other site 398527016194 conserved gate region; other site 398527016195 putative PBP binding loops; other site 398527016196 ABC-ATPase subunit interface; other site 398527016197 type III secretion system chaperone YscW; Region: YscW; TIGR02567 398527016198 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398527016199 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527016200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527016201 enoyl-CoA hydratase; Provisional; Region: PRK06688 398527016202 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527016203 substrate binding site [chemical binding]; other site 398527016204 oxyanion hole (OAH) forming residues; other site 398527016205 trimer interface [polypeptide binding]; other site 398527016206 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527016207 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527016208 fumarylacetoacetase; Region: PLN02856 398527016209 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 398527016210 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398527016211 Protein of unknown function, DUF485; Region: DUF485; cl01231 398527016212 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398527016213 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398527016214 Na binding site [ion binding]; other site 398527016215 Domain of unknown function DUF302; Region: DUF302; cl01364 398527016216 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398527016217 Helix-turn-helix domains; Region: HTH; cl00088 398527016218 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 398527016219 dimerization interface [polypeptide binding]; other site 398527016220 substrate binding pocket [chemical binding]; other site 398527016221 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 398527016222 Prostaglandin dehydrogenases; Region: PGDH; cd05288 398527016223 NAD(P) binding site [chemical binding]; other site 398527016224 substrate binding site [chemical binding]; other site 398527016225 dimer interface [polypeptide binding]; other site 398527016226 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 398527016227 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527016228 active site 398527016229 cytosine deaminase; Provisional; Region: PRK05985 398527016230 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 398527016231 active site 398527016232 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527016233 Na binding site [ion binding]; other site 398527016234 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 398527016235 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527016236 Helix-turn-helix domains; Region: HTH; cl00088 398527016237 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527016238 dimerization interface [polypeptide binding]; other site 398527016239 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527016240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527016241 NAD(P) binding site [chemical binding]; other site 398527016242 active site 398527016243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527016244 Helix-turn-helix domains; Region: HTH; cl00088 398527016245 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527016246 putative effector binding pocket; other site 398527016247 dimerization interface [polypeptide binding]; other site 398527016248 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527016249 ligand binding site [chemical binding]; other site 398527016250 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 398527016251 Haemagglutinin; Region: HIM; pfam05662 398527016252 YadA-like C-terminal region; Region: YadA; pfam03895 398527016253 Haemagglutinin; Region: HIM; pfam05662 398527016254 YadA-like C-terminal region; Region: YadA; pfam03895 398527016255 Response regulator receiver domain; Region: Response_reg; pfam00072 398527016256 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527016257 active site 398527016258 phosphorylation site [posttranslational modification] 398527016259 intermolecular recognition site; other site 398527016260 dimerization interface [polypeptide binding]; other site 398527016261 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527016262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527016263 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 398527016264 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 398527016265 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398527016266 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527016267 dimer interface [polypeptide binding]; other site 398527016268 phosphorylation site [posttranslational modification] 398527016269 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527016270 ATP binding site [chemical binding]; other site 398527016271 Mg2+ binding site [ion binding]; other site 398527016272 G-X-G motif; other site 398527016273 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 398527016274 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 398527016275 N-terminal plug; other site 398527016276 ligand-binding site [chemical binding]; other site 398527016277 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398527016278 substrate binding site [chemical binding]; other site 398527016279 OsmC-like protein; Region: OsmC; cl00767 398527016280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527016281 Helix-turn-helix domains; Region: HTH; cl00088 398527016282 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527016283 putative effector binding pocket; other site 398527016284 dimerization interface [polypeptide binding]; other site 398527016285 Response regulator receiver domain; Region: Response_reg; pfam00072 398527016286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527016287 active site 398527016288 phosphorylation site [posttranslational modification] 398527016289 intermolecular recognition site; other site 398527016290 dimerization interface [polypeptide binding]; other site 398527016291 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398527016292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527016293 active site 398527016294 phosphorylation site [posttranslational modification] 398527016295 intermolecular recognition site; other site 398527016296 dimerization interface [polypeptide binding]; other site 398527016297 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527016298 DNA binding residues [nucleotide binding] 398527016299 dimerization interface [polypeptide binding]; other site 398527016300 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527016301 Helix-turn-helix domains; Region: HTH; cl00088 398527016302 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398527016303 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398527016304 Herpesvirus Glycoprotein B; Region: Glycoprotein_B; pfam00606 398527016305 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 398527016306 active site residue [active] 398527016307 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398527016308 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398527016309 active site 398527016310 nucleophile elbow; other site 398527016311 Patatin phospholipase; Region: DUF3734; pfam12536 398527016312 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 398527016313 classical (c) SDRs; Region: SDR_c; cd05233 398527016314 NAD(P) binding site [chemical binding]; other site 398527016315 active site 398527016316 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 398527016317 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 398527016318 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527016319 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527016320 putative substrate translocation pore; other site 398527016321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527016322 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 398527016323 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527016324 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527016325 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 398527016326 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527016327 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398527016328 Cupin domain; Region: Cupin_2; cl09118 398527016329 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398527016330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527016331 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527016332 Helix-turn-helix domains; Region: HTH; cl00088 398527016333 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527016334 putative effector binding pocket; other site 398527016335 dimerization interface [polypeptide binding]; other site 398527016336 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 398527016337 Ca2+ binding site [ion binding]; other site 398527016338 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 398527016339 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 398527016340 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 398527016341 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 398527016342 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 398527016343 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527016344 putative ligand binding site [chemical binding]; other site 398527016345 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527016346 substrate binding site [chemical binding]; other site 398527016347 activation loop (A-loop); other site 398527016348 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527016349 Predicted ATPase [General function prediction only]; Region: COG3899 398527016350 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398527016351 GAF domain; Region: GAF; cl15785 398527016352 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527016353 PAS domain; Region: PAS_9; pfam13426 398527016354 putative active site [active] 398527016355 heme pocket [chemical binding]; other site 398527016356 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527016357 dimer interface [polypeptide binding]; other site 398527016358 phosphorylation site [posttranslational modification] 398527016359 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527016360 ATP binding site [chemical binding]; other site 398527016361 Mg2+ binding site [ion binding]; other site 398527016362 G-X-G motif; other site 398527016363 GMP synthase; Reviewed; Region: guaA; PRK00074 398527016364 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 398527016365 AMP/PPi binding site [chemical binding]; other site 398527016366 candidate oxyanion hole; other site 398527016367 catalytic triad [active] 398527016368 potential glutamine specificity residues [chemical binding]; other site 398527016369 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 398527016370 ATP Binding subdomain [chemical binding]; other site 398527016371 Ligand Binding sites [chemical binding]; other site 398527016372 Dimerization subdomain; other site 398527016373 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 398527016374 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 398527016375 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 398527016376 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 398527016377 active site 398527016378 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 398527016379 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 398527016380 putative coenzyme Q binding site [chemical binding]; other site 398527016381 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 398527016382 SmpB-tmRNA interface; other site 398527016383 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 398527016384 phosphoenolpyruvate synthase; Validated; Region: PRK06464 398527016385 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 398527016386 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 398527016387 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 398527016388 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 398527016389 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 398527016390 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 398527016391 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 398527016392 RNA/DNA hybrid binding site [nucleotide binding]; other site 398527016393 active site 398527016394 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 398527016395 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 398527016396 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 398527016397 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 398527016398 active site 398527016399 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 398527016400 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 398527016401 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 398527016402 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 398527016403 trimer interface [polypeptide binding]; other site 398527016404 active site 398527016405 UDP-GlcNAc binding site [chemical binding]; other site 398527016406 lipid binding site [chemical binding]; lipid-binding site 398527016407 periplasmic chaperone; Provisional; Region: PRK10780 398527016408 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 398527016409 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 398527016410 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527016411 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527016412 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527016413 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527016414 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 398527016415 Surface antigen; Region: Bac_surface_Ag; cl03097 398527016416 zinc metallopeptidase RseP; Provisional; Region: PRK10779 398527016417 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 398527016418 active site 398527016419 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 398527016420 protein binding site [polypeptide binding]; other site 398527016421 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 398527016422 putative substrate binding region [chemical binding]; other site 398527016423 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 398527016424 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 398527016425 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 398527016426 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 398527016427 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 398527016428 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 398527016429 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 398527016430 catalytic residue [active] 398527016431 putative FPP diphosphate binding site; other site 398527016432 putative FPP binding hydrophobic cleft; other site 398527016433 dimer interface [polypeptide binding]; other site 398527016434 putative IPP diphosphate binding site; other site 398527016435 ribosome recycling factor; Reviewed; Region: frr; PRK00083 398527016436 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 398527016437 hinge region; other site 398527016438 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 398527016439 putative nucleotide binding site [chemical binding]; other site 398527016440 uridine monophosphate binding site [chemical binding]; other site 398527016441 homohexameric interface [polypeptide binding]; other site 398527016442 elongation factor Ts; Provisional; Region: tsf; PRK09377 398527016443 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 398527016444 Elongation factor TS; Region: EF_TS; pfam00889 398527016445 Elongation factor TS; Region: EF_TS; pfam00889 398527016446 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 398527016447 rRNA interaction site [nucleotide binding]; other site 398527016448 S8 interaction site; other site 398527016449 putative laminin-1 binding site; other site 398527016450 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 398527016451 active site 398527016452 PII uridylyl-transferase; Provisional; Region: PRK03059 398527016453 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398527016454 metal binding triad; other site 398527016455 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398527016456 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 398527016457 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 398527016458 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 398527016459 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398527016460 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 398527016461 RNA binding surface [nucleotide binding]; other site 398527016462 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398527016463 active site 398527016464 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 398527016465 active site 398527016466 catalytic residues [active] 398527016467 metal binding site [ion binding]; metal-binding site 398527016468 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 398527016469 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 398527016470 nucleotide binding pocket [chemical binding]; other site 398527016471 K-X-D-G motif; other site 398527016472 catalytic site [active] 398527016473 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 398527016474 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 398527016475 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 398527016476 Dimer interface [polypeptide binding]; other site 398527016477 BRCT sequence motif; other site 398527016478 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 398527016479 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 398527016480 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 398527016481 Walker A/P-loop; other site 398527016482 ATP binding site [chemical binding]; other site 398527016483 Q-loop/lid; other site 398527016484 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 398527016485 Q-loop/lid; other site 398527016486 ABC transporter signature motif; other site 398527016487 Walker B; other site 398527016488 D-loop; other site 398527016489 H-loop/switch region; other site 398527016490 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398527016491 EamA-like transporter family; Region: EamA; cl01037 398527016492 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 398527016493 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527016494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527016495 homodimer interface [polypeptide binding]; other site 398527016496 catalytic residue [active] 398527016497 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 398527016498 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 398527016499 trimer interface [polypeptide binding]; other site 398527016500 active site 398527016501 substrate binding site [chemical binding]; other site 398527016502 CoA binding site [chemical binding]; other site 398527016503 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 398527016504 ArsC family; Region: ArsC; pfam03960 398527016505 putative catalytic residues [active] 398527016506 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 398527016507 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 398527016508 metal binding site [ion binding]; metal-binding site 398527016509 dimer interface [polypeptide binding]; other site 398527016510 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 398527016511 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527016512 S-adenosylmethionine binding site [chemical binding]; other site 398527016513 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 398527016514 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 398527016515 putative active site [active] 398527016516 catalytic site [active] 398527016517 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 398527016518 putative active site [active] 398527016519 catalytic site [active] 398527016520 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 398527016521 catalytic residues [active] 398527016522 dimer interface [polypeptide binding]; other site 398527016523 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 398527016524 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 398527016525 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 398527016526 ABC transporter; Region: ABC_tran_2; pfam12848 398527016527 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 398527016528 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527016529 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 398527016530 DNA repair protein RadA; Provisional; Region: PRK11823 398527016531 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 398527016532 Walker A motif/ATP binding site; other site 398527016533 ATP binding site [chemical binding]; other site 398527016534 Walker B motif; other site 398527016535 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 398527016536 alanine racemase; Reviewed; Region: alr; PRK00053 398527016537 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 398527016538 active site 398527016539 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398527016540 substrate binding site [chemical binding]; other site 398527016541 catalytic residues [active] 398527016542 dimer interface [polypeptide binding]; other site 398527016543 lysophospholipid transporter LplT; Provisional; Region: PRK11195 398527016544 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 398527016545 dimer interface [polypeptide binding]; other site 398527016546 substrate binding site [chemical binding]; other site 398527016547 ATP binding site [chemical binding]; other site 398527016548 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 398527016549 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 398527016550 Fe-S cluster binding site [ion binding]; other site 398527016551 active site 398527016552 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 398527016553 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527016554 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 398527016555 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 398527016556 acyl-CoA binding pocket [chemical binding]; other site 398527016557 CoA binding site [chemical binding]; other site 398527016558 helicase 45; Provisional; Region: PTZ00424 398527016559 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 398527016560 ATP binding site [chemical binding]; other site 398527016561 Mg++ binding site [ion binding]; other site 398527016562 motif III; other site 398527016563 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527016564 nucleotide binding region [chemical binding]; other site 398527016565 ATP-binding site [chemical binding]; other site 398527016566 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 398527016567 tetramer interface [polypeptide binding]; other site 398527016568 active site 398527016569 Mg2+/Mn2+ binding site [ion binding]; other site 398527016570 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527016571 Ligand Binding Site [chemical binding]; other site 398527016572 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527016573 Helix-turn-helix domains; Region: HTH; cl00088 398527016574 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527016575 putative effector binding pocket; other site 398527016576 dimerization interface [polypeptide binding]; other site 398527016577 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398527016578 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527016579 motif II; other site 398527016580 malate synthase A; Region: malate_syn_A; TIGR01344 398527016581 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 398527016582 active site 398527016583 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 398527016584 putative active site pocket [active] 398527016585 dimerization interface [polypeptide binding]; other site 398527016586 putative catalytic residue [active] 398527016587 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 398527016588 Cupin domain; Region: Cupin_2; cl09118 398527016589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527016590 Helix-turn-helix domain; Region: HTH_18; pfam12833 398527016591 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527016592 Predicted acetyltransferase [General function prediction only]; Region: COG3393 398527016593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527016594 Coenzyme A binding pocket [chemical binding]; other site 398527016595 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 398527016596 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398527016597 active site 398527016598 HIGH motif; other site 398527016599 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398527016600 active site 398527016601 KMSKS motif; other site 398527016602 hypothetical protein; Provisional; Region: PRK10279 398527016603 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 398527016604 nucleophile elbow; other site 398527016605 NlpC/P60 family; Region: NLPC_P60; cl11438 398527016606 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 398527016607 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527016608 Walker A/P-loop; other site 398527016609 ATP binding site [chemical binding]; other site 398527016610 Q-loop/lid; other site 398527016611 ABC transporter signature motif; other site 398527016612 Walker B; other site 398527016613 D-loop; other site 398527016614 H-loop/switch region; other site 398527016615 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527016616 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527016617 Walker A/P-loop; other site 398527016618 ATP binding site [chemical binding]; other site 398527016619 Q-loop/lid; other site 398527016620 ABC transporter signature motif; other site 398527016621 Walker B; other site 398527016622 D-loop; other site 398527016623 H-loop/switch region; other site 398527016624 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527016625 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398527016626 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 398527016627 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527016628 dimer interface [polypeptide binding]; other site 398527016629 conserved gate region; other site 398527016630 putative PBP binding loops; other site 398527016631 ABC-ATPase subunit interface; other site 398527016632 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 398527016633 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527016634 dimer interface [polypeptide binding]; other site 398527016635 conserved gate region; other site 398527016636 putative PBP binding loops; other site 398527016637 ABC-ATPase subunit interface; other site 398527016638 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 398527016639 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 398527016640 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 398527016641 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 398527016642 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 398527016643 NAD binding site [chemical binding]; other site 398527016644 homotetramer interface [polypeptide binding]; other site 398527016645 homodimer interface [polypeptide binding]; other site 398527016646 substrate binding site [chemical binding]; other site 398527016647 active site 398527016648 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398527016649 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527016650 aspartate kinase; Reviewed; Region: PRK06635 398527016651 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 398527016652 putative nucleotide binding site [chemical binding]; other site 398527016653 putative catalytic residues [active] 398527016654 putative Mg ion binding site [ion binding]; other site 398527016655 putative aspartate binding site [chemical binding]; other site 398527016656 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 398527016657 putative allosteric regulatory site; other site 398527016658 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 398527016659 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 398527016660 Ligand Binding Site [chemical binding]; other site 398527016661 TilS substrate binding domain; Region: TilS; pfam09179 398527016662 B3/4 domain; Region: B3_4; cl11458 398527016663 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 398527016664 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 398527016665 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398527016666 endonuclease III; Region: ENDO3c; smart00478 398527016667 minor groove reading motif; other site 398527016668 helix-hairpin-helix signature motif; other site 398527016669 substrate binding pocket [chemical binding]; other site 398527016670 active site 398527016671 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 398527016672 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398527016673 active site 398527016674 HIGH motif; other site 398527016675 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398527016676 KMSKS motif; other site 398527016677 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 398527016678 tRNA binding surface [nucleotide binding]; other site 398527016679 anticodon binding site; other site 398527016680 TPR repeat; Region: TPR_11; pfam13414 398527016681 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527016682 binding surface 398527016683 TPR motif; other site 398527016684 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 398527016685 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 398527016686 substrate binding site [chemical binding]; other site 398527016687 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 398527016688 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 398527016689 substrate binding site [chemical binding]; other site 398527016690 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 398527016691 putative active site [active] 398527016692 putative metal binding site [ion binding]; other site 398527016693 serine O-acetyltransferase; Region: cysE; TIGR01172 398527016694 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 398527016695 trimer interface [polypeptide binding]; other site 398527016696 active site 398527016697 substrate binding site [chemical binding]; other site 398527016698 CoA binding site [chemical binding]; other site 398527016699 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 398527016700 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 398527016701 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 398527016702 active site 398527016703 dimerization interface [polypeptide binding]; other site 398527016704 lysophospholipid transporter LplT; Provisional; Region: PRK11195 398527016705 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 398527016706 MutS domain I; Region: MutS_I; pfam01624 398527016707 MutS domain II; Region: MutS_II; pfam05188 398527016708 MutS family domain IV; Region: MutS_IV; pfam05190 398527016709 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 398527016710 Walker A/P-loop; other site 398527016711 ATP binding site [chemical binding]; other site 398527016712 Q-loop/lid; other site 398527016713 ABC transporter signature motif; other site 398527016714 Walker B; other site 398527016715 D-loop; other site 398527016716 H-loop/switch region; other site 398527016717 large tegument protein UL36; Provisional; Region: PHA03247 398527016718 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 398527016719 Uncharacterized conserved protein [Function unknown]; Region: COG2850 398527016720 JmjC domain, hydroxylase; Region: JmjC; cl15814 398527016721 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 398527016722 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527016723 DEAD_2; Region: DEAD_2; pfam06733 398527016724 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527016725 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 398527016726 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 398527016727 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 398527016728 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 398527016729 RNA binding site [nucleotide binding]; other site 398527016730 K+ potassium transporter; Region: K_trans; cl15781 398527016731 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398527016732 active site 398527016733 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 398527016734 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 398527016735 GDP-binding site [chemical binding]; other site 398527016736 ACT binding site; other site 398527016737 IMP binding site; other site 398527016738 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 398527016739 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 398527016740 dimer interface [polypeptide binding]; other site 398527016741 motif 1; other site 398527016742 active site 398527016743 motif 2; other site 398527016744 motif 3; other site 398527016745 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 398527016746 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398527016747 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 398527016748 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 398527016749 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 398527016750 HflK protein; Region: hflK; TIGR01933 398527016751 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 398527016752 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 398527016753 HflX GTPase family; Region: HflX; cd01878 398527016754 G1 box; other site 398527016755 GTP/Mg2+ binding site [chemical binding]; other site 398527016756 Switch I region; other site 398527016757 G2 box; other site 398527016758 G3 box; other site 398527016759 Switch II region; other site 398527016760 G4 box; other site 398527016761 G5 box; other site 398527016762 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 398527016763 Sm1 motif; other site 398527016764 intra - hexamer interaction site; other site 398527016765 inter - hexamer interaction site [polypeptide binding]; other site 398527016766 nucleotide binding pocket [chemical binding]; other site 398527016767 Sm2 motif; other site 398527016768 GTP-binding protein Der; Reviewed; Region: PRK00093 398527016769 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 398527016770 G1 box; other site 398527016771 GTP/Mg2+ binding site [chemical binding]; other site 398527016772 Switch I region; other site 398527016773 G2 box; other site 398527016774 Switch II region; other site 398527016775 G3 box; other site 398527016776 G4 box; other site 398527016777 G5 box; other site 398527016778 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 398527016779 G1 box; other site 398527016780 GTP/Mg2+ binding site [chemical binding]; other site 398527016781 Switch I region; other site 398527016782 G2 box; other site 398527016783 G3 box; other site 398527016784 Switch II region; other site 398527016785 G4 box; other site 398527016786 G5 box; other site 398527016787 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 398527016788 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 398527016789 Trp docking motif [polypeptide binding]; other site 398527016790 active site 398527016791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 398527016792 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 398527016793 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 398527016794 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 398527016795 dimer interface [polypeptide binding]; other site 398527016796 motif 1; other site 398527016797 active site 398527016798 motif 2; other site 398527016799 motif 3; other site 398527016800 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 398527016801 anticodon binding site; other site 398527016802 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 398527016803 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398527016804 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398527016805 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527016806 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 398527016807 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 398527016808 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 398527016809 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527016810 FeS/SAM binding site; other site 398527016811 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 398527016812 active site 398527016813 multimer interface [polypeptide binding]; other site 398527016814 YccA-like proteins; Region: YccA_like; cd10433 398527016815 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527016816 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 398527016817 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 398527016818 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 398527016819 dihydrodipicolinate synthase; Region: dapA; TIGR00674 398527016820 dimer interface [polypeptide binding]; other site 398527016821 active site 398527016822 catalytic residue [active] 398527016823 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527016824 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 398527016825 active site 398527016826 HIGH motif; other site 398527016827 dimer interface [polypeptide binding]; other site 398527016828 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398527016829 active site 398527016830 KMSKS motif; other site 398527016831 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 398527016832 active site 398527016833 putative substrate binding region [chemical binding]; other site 398527016834 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 398527016835 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 398527016836 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527016837 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527016838 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 398527016839 dinuclear metal binding motif [ion binding]; other site 398527016840 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 398527016841 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 398527016842 trimer interface [polypeptide binding]; other site 398527016843 putative metal binding site [ion binding]; other site 398527016844 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 398527016845 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 398527016846 dimerization interface [polypeptide binding]; other site 398527016847 domain crossover interface; other site 398527016848 redox-dependent activation switch; other site 398527016849 Septum formation initiator; Region: DivIC; cl11433 398527016850 enolase; Provisional; Region: eno; PRK00077 398527016851 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 398527016852 dimer interface [polypeptide binding]; other site 398527016853 metal binding site [ion binding]; metal-binding site 398527016854 substrate binding pocket [chemical binding]; other site 398527016855 NeuB family; Region: NeuB; cl00496 398527016856 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398527016857 CTP synthetase; Validated; Region: pyrG; PRK05380 398527016858 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 398527016859 Catalytic site [active] 398527016860 active site 398527016861 UTP binding site [chemical binding]; other site 398527016862 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 398527016863 active site 398527016864 putative oxyanion hole; other site 398527016865 catalytic triad [active] 398527016866 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527016867 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 398527016868 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 398527016869 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 398527016870 Competence protein; Region: Competence; cl00471 398527016871 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527016872 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398527016873 active site 398527016874 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 398527016875 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 398527016876 Walker A/P-loop; other site 398527016877 ATP binding site [chemical binding]; other site 398527016878 Q-loop/lid; other site 398527016879 ABC transporter signature motif; other site 398527016880 Walker B; other site 398527016881 D-loop; other site 398527016882 H-loop/switch region; other site 398527016883 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 398527016884 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398527016885 FtsX-like permease family; Region: FtsX; cl15850 398527016886 Sulfatase; Region: Sulfatase; cl10460 398527016887 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 398527016888 DHH family; Region: DHH; pfam01368 398527016889 peptide chain release factor 2; Validated; Region: prfB; PRK00578 398527016890 RF-1 domain; Region: RF-1; cl02875 398527016891 RF-1 domain; Region: RF-1; cl02875 398527016892 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 398527016893 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 398527016894 dimer interface [polypeptide binding]; other site 398527016895 putative anticodon binding site; other site 398527016896 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 398527016897 motif 1; other site 398527016898 active site 398527016899 motif 2; other site 398527016900 motif 3; other site 398527016901 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 398527016902 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527016903 catalytic loop [active] 398527016904 iron binding site [ion binding]; other site 398527016905 chaperone protein HscA; Provisional; Region: hscA; PRK05183 398527016906 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 398527016907 co-chaperone HscB; Provisional; Region: hscB; PRK03578 398527016908 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 398527016909 HSP70 interaction site [polypeptide binding]; other site 398527016910 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 398527016911 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 398527016912 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 398527016913 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 398527016914 trimerization site [polypeptide binding]; other site 398527016915 active site 398527016916 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527016917 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 398527016918 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527016919 catalytic residue [active] 398527016920 Helix-turn-helix domains; Region: HTH; cl00088 398527016921 Rrf2 family protein; Region: rrf2_super; TIGR00738 398527016922 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398527016923 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398527016924 active site 398527016925 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 398527016926 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 398527016927 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 398527016928 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 398527016929 Cysteine-rich domain; Region: CCG; pfam02754 398527016930 Cysteine-rich domain; Region: CCG; pfam02754 398527016931 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527016932 Helix-turn-helix domains; Region: HTH; cl00088 398527016933 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527016934 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 398527016935 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527016936 Phasin protein; Region: Phasin_2; cl11491 398527016937 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398527016938 E3 interaction surface; other site 398527016939 lipoyl attachment site [posttranslational modification]; other site 398527016940 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 398527016941 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527016942 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398527016943 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 398527016944 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398527016945 E3 interaction surface; other site 398527016946 lipoyl attachment site [posttranslational modification]; other site 398527016947 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 398527016948 E3 interaction surface; other site 398527016949 lipoyl attachment site [posttranslational modification]; other site 398527016950 e3 binding domain; Region: E3_binding; pfam02817 398527016951 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 398527016952 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 398527016953 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 398527016954 dimer interface [polypeptide binding]; other site 398527016955 TPP-binding site [chemical binding]; other site 398527016956 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 398527016957 PAS domain S-box; Region: sensory_box; TIGR00229 398527016958 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 398527016959 putative active site [active] 398527016960 heme pocket [chemical binding]; other site 398527016961 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 398527016962 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527016963 dimer interface [polypeptide binding]; other site 398527016964 phosphorylation site [posttranslational modification] 398527016965 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527016966 ATP binding site [chemical binding]; other site 398527016967 Mg2+ binding site [ion binding]; other site 398527016968 G-X-G motif; other site 398527016969 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398527016970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527016971 active site 398527016972 phosphorylation site [posttranslational modification] 398527016973 intermolecular recognition site; other site 398527016974 dimerization interface [polypeptide binding]; other site 398527016975 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527016976 DNA binding residues [nucleotide binding] 398527016977 dimerization interface [polypeptide binding]; other site 398527016978 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 398527016979 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 398527016980 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 398527016981 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 398527016982 homodimer interface [polypeptide binding]; other site 398527016983 NADP binding site [chemical binding]; other site 398527016984 substrate binding site [chemical binding]; other site 398527016985 OpgC protein; Region: OpgC_C; cl00792 398527016986 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398527016987 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 398527016988 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 398527016989 active site 398527016990 Zn binding site [ion binding]; other site 398527016991 cytosine deaminase; Validated; Region: PRK07572 398527016992 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 398527016993 active site 398527016994 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398527016995 nascent polypeptide-associated complex protein; Reviewed; Region: nac; PRK06369 398527016996 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 398527016997 putative active site [active] 398527016998 putative Zn binding site [ion binding]; other site 398527016999 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398527017000 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 398527017001 HTH-like domain; Region: HTH_21; pfam13276 398527017002 Integrase core domain; Region: rve; cl01316 398527017003 Integrase core domain; Region: rve_3; cl15866 398527017004 Helix-turn-helix domains; Region: HTH; cl00088 398527017005 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398527017006 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 398527017007 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 398527017008 putative catalytic site [active] 398527017009 putative phosphate binding site [ion binding]; other site 398527017010 active site 398527017011 metal binding site A [ion binding]; metal-binding site 398527017012 DNA binding site [nucleotide binding] 398527017013 putative AP binding site [nucleotide binding]; other site 398527017014 putative metal binding site B [ion binding]; other site 398527017015 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 398527017016 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527017017 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 398527017018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527017019 active site 398527017020 phosphorylation site [posttranslational modification] 398527017021 intermolecular recognition site; other site 398527017022 dimerization interface [polypeptide binding]; other site 398527017023 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527017024 Walker A motif; other site 398527017025 ATP binding site [chemical binding]; other site 398527017026 Walker B motif; other site 398527017027 arginine finger; other site 398527017028 Helix-turn-helix domains; Region: HTH; cl00088 398527017029 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398527017030 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527017031 dimer interface [polypeptide binding]; other site 398527017032 phosphorylation site [posttranslational modification] 398527017033 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527017034 ATP binding site [chemical binding]; other site 398527017035 Mg2+ binding site [ion binding]; other site 398527017036 G-X-G motif; other site 398527017037 glutamine synthetase; Provisional; Region: glnA; PRK09469 398527017038 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 398527017039 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398527017040 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 398527017041 active site residue [active] 398527017042 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 398527017043 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 398527017044 putative MPT binding site; other site 398527017045 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 398527017046 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398527017047 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 398527017048 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 398527017049 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 398527017050 Haemagglutinin; Region: HIM; pfam05662 398527017051 Haemagglutinin; Region: HIM; pfam05662 398527017052 YadA-like C-terminal region; Region: YadA; pfam03895 398527017053 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 398527017054 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527017055 ATP binding site [chemical binding]; other site 398527017056 putative Mg++ binding site [ion binding]; other site 398527017057 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527017058 nucleotide binding region [chemical binding]; other site 398527017059 ATP-binding site [chemical binding]; other site 398527017060 Helicase associated domain (HA2); Region: HA2; cl04503 398527017061 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 398527017062 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 398527017063 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 398527017064 N-acetylglutamate synthase; Validated; Region: PRK05279 398527017065 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 398527017066 putative feedback inhibition sensing region; other site 398527017067 putative nucleotide binding site [chemical binding]; other site 398527017068 putative substrate binding site [chemical binding]; other site 398527017069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527017070 Coenzyme A binding pocket [chemical binding]; other site 398527017071 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 398527017072 proline/glycine betaine transporter; Provisional; Region: PRK10642 398527017073 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527017074 putative substrate translocation pore; other site 398527017075 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 398527017076 active site 398527017077 metal binding site [ion binding]; metal-binding site 398527017078 homotetramer interface [polypeptide binding]; other site 398527017079 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 398527017080 nif11 domain/cupin domain protein; Region: nif11_cupin; TIGR03890 398527017081 mercuric reductase; Validated; Region: PRK06370 398527017082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527017083 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527017084 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398527017085 GAF domain; Region: GAF_2; pfam13185 398527017086 GAF domain; Region: GAF; cl15785 398527017087 PAS fold; Region: PAS; pfam00989 398527017088 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527017089 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527017090 metal binding site [ion binding]; metal-binding site 398527017091 active site 398527017092 I-site; other site 398527017093 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527017094 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 398527017095 Bacterial SH3 domain; Region: SH3_3; cl02551 398527017096 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 398527017097 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 398527017098 nucleoside/Zn binding site; other site 398527017099 dimer interface [polypeptide binding]; other site 398527017100 catalytic motif [active] 398527017101 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 398527017102 putative ligand binding site [chemical binding]; other site 398527017103 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527017104 classical (c) SDRs; Region: SDR_c; cd05233 398527017105 NAD(P) binding site [chemical binding]; other site 398527017106 active site 398527017107 Helix-turn-helix domains; Region: HTH; cl00088 398527017108 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527017109 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527017110 DNA-binding site [nucleotide binding]; DNA binding site 398527017111 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527017112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527017113 homodimer interface [polypeptide binding]; other site 398527017114 catalytic residue [active] 398527017115 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 398527017116 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 398527017117 putative molybdopterin cofactor binding site [chemical binding]; other site 398527017118 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 398527017119 putative molybdopterin cofactor binding site; other site 398527017120 Protein of unknown function DUF45; Region: DUF45; cl00636 398527017121 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 398527017122 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 398527017123 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398527017124 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398527017125 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398527017126 DNA binding site [nucleotide binding] 398527017127 domain linker motif; other site 398527017128 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 398527017129 putative dimerization interface [polypeptide binding]; other site 398527017130 putative ligand binding site [chemical binding]; other site 398527017131 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527017132 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398527017133 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398527017134 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 398527017135 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398527017136 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527017137 dimer interface [polypeptide binding]; other site 398527017138 conserved gate region; other site 398527017139 putative PBP binding loops; other site 398527017140 ABC-ATPase subunit interface; other site 398527017141 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398527017142 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527017143 Walker A/P-loop; other site 398527017144 ATP binding site [chemical binding]; other site 398527017145 Q-loop/lid; other site 398527017146 ABC transporter signature motif; other site 398527017147 Walker B; other site 398527017148 D-loop; other site 398527017149 H-loop/switch region; other site 398527017150 TOBE domain; Region: TOBE_2; cl01440 398527017151 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 398527017152 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398527017153 active site 398527017154 metal binding site [ion binding]; metal-binding site 398527017155 hexamer interface [polypeptide binding]; other site 398527017156 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 398527017157 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398527017158 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527017159 Response regulator receiver domain; Region: Response_reg; pfam00072 398527017160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527017161 active site 398527017162 phosphorylation site [posttranslational modification] 398527017163 intermolecular recognition site; other site 398527017164 dimerization interface [polypeptide binding]; other site 398527017165 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398527017166 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527017167 active site 398527017168 phosphorylation site [posttranslational modification] 398527017169 intermolecular recognition site; other site 398527017170 dimerization interface [polypeptide binding]; other site 398527017171 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527017172 DNA binding residues [nucleotide binding] 398527017173 dimerization interface [polypeptide binding]; other site 398527017174 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 398527017175 Ferritin-like domain; Region: Ferritin; pfam00210 398527017176 dinuclear metal binding motif [ion binding]; other site 398527017177 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527017178 Histidine kinase; Region: HisKA_3; pfam07730 398527017179 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527017180 ATP binding site [chemical binding]; other site 398527017181 Mg2+ binding site [ion binding]; other site 398527017182 G-X-G motif; other site 398527017183 Entericidin EcnA/B family; Region: Entericidin; cl02322 398527017184 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 398527017185 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 398527017186 active site 398527017187 FMN binding site [chemical binding]; other site 398527017188 2,4-decadienoyl-CoA binding site; other site 398527017189 catalytic residue [active] 398527017190 4Fe-4S cluster binding site [ion binding]; other site 398527017191 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 398527017192 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527017193 nitrite reductase [NAD(P)H], large subunit; Region: nitri_red_nirB; TIGR02374 398527017194 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 398527017195 EamA-like transporter family; Region: EamA; cl01037 398527017196 EamA-like transporter family; Region: EamA; cl01037 398527017197 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 398527017198 Moco binding site; other site 398527017199 metal coordination site [ion binding]; other site 398527017200 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 398527017201 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 398527017202 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 398527017203 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398527017204 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 398527017205 ThiC-associated domain; Region: ThiC-associated; pfam13667 398527017206 ThiC family; Region: ThiC; cl08031 398527017207 L-lactate permease; Region: Lactate_perm; cl00701 398527017208 EamA-like transporter family; Region: EamA; cl01037 398527017209 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398527017210 EamA-like transporter family; Region: EamA; cl01037 398527017211 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 398527017212 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 398527017213 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 398527017214 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 398527017215 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 398527017216 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527017217 2-isopropylmalate synthase; Validated; Region: PRK03739 398527017218 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 398527017219 active site 398527017220 catalytic residues [active] 398527017221 metal binding site [ion binding]; metal-binding site 398527017222 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 398527017223 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398527017224 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 398527017225 Walker A/P-loop; other site 398527017226 ATP binding site [chemical binding]; other site 398527017227 Q-loop/lid; other site 398527017228 ABC transporter signature motif; other site 398527017229 Walker B; other site 398527017230 D-loop; other site 398527017231 H-loop/switch region; other site 398527017232 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527017233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527017234 dimer interface [polypeptide binding]; other site 398527017235 conserved gate region; other site 398527017236 putative PBP binding loops; other site 398527017237 ABC-ATPase subunit interface; other site 398527017238 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527017239 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527017240 substrate binding pocket [chemical binding]; other site 398527017241 membrane-bound complex binding site; other site 398527017242 hinge residues; other site 398527017243 phenylhydantoinase; Validated; Region: PRK08323 398527017244 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 398527017245 tetramer interface [polypeptide binding]; other site 398527017246 active site 398527017247 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 398527017248 Na binding site [ion binding]; other site 398527017249 putative substrate binding site [chemical binding]; other site 398527017250 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 398527017251 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 398527017252 homodimer interface [polypeptide binding]; other site 398527017253 active site 398527017254 FMN binding site [chemical binding]; other site 398527017255 substrate binding site [chemical binding]; other site 398527017256 4Fe-4S binding domain; Region: Fer4; cl02805 398527017257 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 398527017258 allantoate amidohydrolase; Reviewed; Region: PRK09290 398527017259 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398527017260 active site 398527017261 metal binding site [ion binding]; metal-binding site 398527017262 dimer interface [polypeptide binding]; other site 398527017263 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 398527017264 Helix-turn-helix domains; Region: HTH; cl00088 398527017265 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 398527017266 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 398527017267 4Fe-4S binding domain; Region: Fer4; cl02805 398527017268 4Fe-4S binding domain; Region: Fer4; cl02805 398527017269 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 398527017270 dimerization interface [polypeptide binding]; other site 398527017271 FAD binding pocket [chemical binding]; other site 398527017272 FAD binding motif [chemical binding]; other site 398527017273 catalytic residues [active] 398527017274 NAD binding pocket [chemical binding]; other site 398527017275 phosphate binding motif [ion binding]; other site 398527017276 beta-alpha-beta structure motif; other site 398527017277 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 398527017278 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 398527017279 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527017280 substrate binding site [chemical binding]; other site 398527017281 oxyanion hole (OAH) forming residues; other site 398527017282 trimer interface [polypeptide binding]; other site 398527017283 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527017284 substrate binding site [chemical binding]; other site 398527017285 trimer interface [polypeptide binding]; other site 398527017286 oxyanion hole (OAH) forming residues; other site 398527017287 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527017288 non-specific DNA binding site [nucleotide binding]; other site 398527017289 salt bridge; other site 398527017290 sequence-specific DNA binding site [nucleotide binding]; other site 398527017291 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 398527017292 Shikimate kinase; Region: SKI; pfam01202 398527017293 ADP binding site [chemical binding]; other site 398527017294 magnesium binding site [ion binding]; other site 398527017295 putative shikimate binding site; other site 398527017296 aldehyde dehydrogenase; Provisional; Region: PRK11903 398527017297 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 398527017298 substrate binding site [chemical binding]; other site 398527017299 dimer interface [polypeptide binding]; other site 398527017300 NADP binding site [chemical binding]; other site 398527017301 catalytic residues [active] 398527017302 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 398527017303 AMP-binding enzyme; Region: AMP-binding; cl15778 398527017304 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527017305 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527017306 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cl12127 398527017307 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 398527017308 GntP family permease; Region: GntP_permease; pfam02447 398527017309 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527017310 trimer interface [polypeptide binding]; other site 398527017311 eyelet of channel; other site 398527017312 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 398527017313 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527017314 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527017315 catalytic residue [active] 398527017316 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527017317 Helix-turn-helix domains; Region: HTH; cl00088 398527017318 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527017319 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 398527017320 homotrimer interaction site [polypeptide binding]; other site 398527017321 putative active site [active] 398527017322 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 398527017323 Phosphoesterase family; Region: Phosphoesterase; cl15450 398527017324 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398527017325 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398527017326 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 398527017327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527017328 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398527017329 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 398527017330 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 398527017331 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 398527017332 dimerization interface [polypeptide binding]; other site 398527017333 putative ATP binding site [chemical binding]; other site 398527017334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527017335 Coenzyme A binding pocket [chemical binding]; other site 398527017336 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 398527017337 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527017338 FeS/SAM binding site; other site 398527017339 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398527017340 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 398527017341 putative active site [active] 398527017342 catalytic triad [active] 398527017343 putative dimer interface [polypeptide binding]; other site 398527017344 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 398527017345 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527017346 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527017347 DNA-binding site [nucleotide binding]; DNA binding site 398527017348 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527017349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527017350 homodimer interface [polypeptide binding]; other site 398527017351 catalytic residue [active] 398527017352 Cache domain; Region: Cache_1; pfam02743 398527017353 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527017354 dimerization interface [polypeptide binding]; other site 398527017355 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527017356 dimer interface [polypeptide binding]; other site 398527017357 putative CheW interface [polypeptide binding]; other site 398527017358 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527017359 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527017360 dimer interface [polypeptide binding]; other site 398527017361 putative CheW interface [polypeptide binding]; other site 398527017362 Ribbon-helix-helix domain; Region: RHH_4; cl01775 398527017363 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398527017364 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527017365 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 398527017366 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527017367 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 398527017368 dimer interface [polypeptide binding]; other site 398527017369 active site 398527017370 metal binding site [ion binding]; metal-binding site 398527017371 glutathione binding site [chemical binding]; other site 398527017372 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 398527017373 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 398527017374 Helix-turn-helix domains; Region: HTH; cl00088 398527017375 AsnC family; Region: AsnC_trans_reg; pfam01037 398527017376 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398527017377 AMP-binding enzyme; Region: AMP-binding; cl15778 398527017378 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527017379 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527017380 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 398527017381 NAD(P) binding site [chemical binding]; other site 398527017382 substrate binding site [chemical binding]; other site 398527017383 homotetramer interface [polypeptide binding]; other site 398527017384 active site 398527017385 homodimer interface [polypeptide binding]; other site 398527017386 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 398527017387 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398527017388 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 398527017389 substrate binding site [chemical binding]; other site 398527017390 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 398527017391 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 398527017392 substrate binding site [chemical binding]; other site 398527017393 ligand binding site [chemical binding]; other site 398527017394 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527017395 Helix-turn-helix domains; Region: HTH; cl00088 398527017396 transcriptional activator TtdR; Provisional; Region: PRK09801 398527017397 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 398527017398 putative effector binding pocket; other site 398527017399 putative dimerization interface [polypeptide binding]; other site 398527017400 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527017401 Helix-turn-helix domains; Region: HTH; cl00088 398527017402 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527017403 putative effector binding pocket; other site 398527017404 dimerization interface [polypeptide binding]; other site 398527017405 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527017406 substrate binding site [chemical binding]; other site 398527017407 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 398527017408 oxyanion hole (OAH) forming residues; other site 398527017409 trimer interface [polypeptide binding]; other site 398527017410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527017411 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398527017412 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 398527017413 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527017414 active site 398527017415 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 398527017416 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398527017417 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398527017418 active site 398527017419 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527017420 Helix-turn-helix domains; Region: HTH; cl00088 398527017421 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 398527017422 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 398527017423 heme binding site [chemical binding]; other site 398527017424 ferroxidase pore; other site 398527017425 ferroxidase diiron center [ion binding]; other site 398527017426 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 398527017427 iron-sulfur cluster [ion binding]; other site 398527017428 [2Fe-2S] cluster binding site [ion binding]; other site 398527017429 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 398527017430 Cytochrome P450; Region: p450; pfam00067 398527017431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527017432 FAD dependent oxidoreductase; Region: DAO; pfam01266 398527017433 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398527017434 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 398527017435 Walker A/P-loop; other site 398527017436 ATP binding site [chemical binding]; other site 398527017437 Q-loop/lid; other site 398527017438 ABC transporter signature motif; other site 398527017439 Walker B; other site 398527017440 D-loop; other site 398527017441 H-loop/switch region; other site 398527017442 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527017443 dimer interface [polypeptide binding]; other site 398527017444 conserved gate region; other site 398527017445 putative PBP binding loops; other site 398527017446 ABC-ATPase subunit interface; other site 398527017447 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527017448 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527017449 substrate binding pocket [chemical binding]; other site 398527017450 membrane-bound complex binding site; other site 398527017451 hinge residues; other site 398527017452 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527017453 Helix-turn-helix domains; Region: HTH; cl00088 398527017454 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527017455 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398527017456 active site 398527017457 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 398527017458 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398527017459 DNA binding residues [nucleotide binding] 398527017460 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 398527017461 IHF dimer interface [polypeptide binding]; other site 398527017462 IHF - DNA interface [nucleotide binding]; other site 398527017463 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 398527017464 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 398527017465 putative tRNA-binding site [nucleotide binding]; other site 398527017466 B3/4 domain; Region: B3_4; cl11458 398527017467 tRNA synthetase B5 domain; Region: B5; cl08394 398527017468 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 398527017469 dimer interface [polypeptide binding]; other site 398527017470 motif 1; other site 398527017471 motif 3; other site 398527017472 motif 2; other site 398527017473 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 398527017474 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 398527017475 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 398527017476 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 398527017477 dimer interface [polypeptide binding]; other site 398527017478 motif 1; other site 398527017479 active site 398527017480 motif 2; other site 398527017481 motif 3; other site 398527017482 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 398527017483 23S rRNA binding site [nucleotide binding]; other site 398527017484 L21 binding site [polypeptide binding]; other site 398527017485 L13 binding site [polypeptide binding]; other site 398527017486 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 398527017487 translation initiation factor IF-3; Region: infC; TIGR00168 398527017488 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 398527017489 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 398527017490 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 398527017491 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 398527017492 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 398527017493 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 398527017494 active site 398527017495 dimer interface [polypeptide binding]; other site 398527017496 motif 1; other site 398527017497 motif 2; other site 398527017498 motif 3; other site 398527017499 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 398527017500 anticodon binding site; other site 398527017501 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398527017502 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 398527017503 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398527017504 synthetase active site [active] 398527017505 NTP binding site [chemical binding]; other site 398527017506 metal binding site [ion binding]; metal-binding site 398527017507 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 398527017508 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 398527017509 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 398527017510 homotrimer interaction site [polypeptide binding]; other site 398527017511 putative active site [active] 398527017512 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527017513 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527017514 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527017515 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527017516 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527017517 PAS domain; Region: PAS_9; pfam13426 398527017518 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527017519 DNA binding residues [nucleotide binding] 398527017520 dimerization interface [polypeptide binding]; other site 398527017521 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398527017522 active site 398527017523 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527017524 classical (c) SDRs; Region: SDR_c; cd05233 398527017525 NAD(P) binding site [chemical binding]; other site 398527017526 active site 398527017527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527017528 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 398527017529 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 398527017530 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 398527017531 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527017532 binding surface 398527017533 TPR motif; other site 398527017534 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 398527017535 Tetramer interface [polypeptide binding]; other site 398527017536 active site 398527017537 FMN-binding site [chemical binding]; other site 398527017538 lysophospholipid transporter LplT; Provisional; Region: PRK11195 398527017539 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527017540 putative substrate translocation pore; other site 398527017541 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398527017542 putative acyl-acceptor binding pocket; other site 398527017543 FOG: CBS domain [General function prediction only]; Region: COG0517 398527017544 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_12; cd04625 398527017545 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 398527017546 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 398527017547 homodimer interface [polypeptide binding]; other site 398527017548 substrate-cofactor binding pocket; other site 398527017549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527017550 catalytic residue [active] 398527017551 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527017552 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527017553 Protein of unknown function (DUF962); Region: DUF962; cl01879 398527017554 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 398527017555 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527017556 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 398527017557 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398527017558 FAD binding domain; Region: FAD_binding_4; pfam01565 398527017559 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 398527017560 putative active site [active] 398527017561 putative metal binding site [ion binding]; other site 398527017562 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 398527017563 transcriptional regulator; Provisional; Region: PRK10632 398527017564 Helix-turn-helix domains; Region: HTH; cl00088 398527017565 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527017566 putative effector binding pocket; other site 398527017567 dimerization interface [polypeptide binding]; other site 398527017568 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527017569 Fusaric acid resistance protein family; Region: FUSC; pfam04632 398527017570 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 398527017571 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 398527017572 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 398527017573 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527017574 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527017575 PAAR motif; Region: PAAR_motif; cl15808 398527017576 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398527017577 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 398527017578 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398527017579 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398527017580 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398527017581 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398527017582 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 398527017583 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398527017584 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527017585 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527017586 dimer interface [polypeptide binding]; other site 398527017587 putative CheW interface [polypeptide binding]; other site 398527017588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527017589 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527017590 putative substrate translocation pore; other site 398527017591 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 398527017592 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 398527017593 AMP-binding enzyme; Region: AMP-binding; cl15778 398527017594 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527017595 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 398527017596 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 398527017597 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527017598 Family description; Region: UvrD_C_2; cl15862 398527017599 Helix-turn-helix domains; Region: HTH; cl00088 398527017600 putative transposase OrfB; Reviewed; Region: PHA02517 398527017601 HTH-like domain; Region: HTH_21; pfam13276 398527017602 Integrase core domain; Region: rve; cl01316 398527017603 Integrase core domain; Region: rve_3; cl15866 398527017604 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 398527017605 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 398527017606 HIGH motif; other site 398527017607 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398527017608 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 398527017609 active site 398527017610 KMSKS motif; other site 398527017611 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 398527017612 tRNA binding surface [nucleotide binding]; other site 398527017613 anticodon binding site; other site 398527017614 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 398527017615 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 398527017616 active site 398527017617 tetramer interface; other site 398527017618 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 398527017619 CPxP motif; other site 398527017620 Helix-turn-helix domains; Region: HTH; cl00088 398527017621 putative transposase OrfB; Reviewed; Region: PHA02517 398527017622 HTH-like domain; Region: HTH_21; pfam13276 398527017623 Integrase core domain; Region: rve; cl01316 398527017624 Integrase core domain; Region: rve_3; cl15866 398527017625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527017626 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 398527017627 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398527017628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527017629 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 398527017630 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398527017631 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398527017632 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398527017633 putative active site [active] 398527017634 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 398527017635 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398527017636 putative ligand binding site [chemical binding]; other site 398527017637 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527017638 TM-ABC transporter signature motif; other site 398527017639 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527017640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527017641 Walker A/P-loop; other site 398527017642 ATP binding site [chemical binding]; other site 398527017643 Q-loop/lid; other site 398527017644 ABC transporter signature motif; other site 398527017645 Walker B; other site 398527017646 D-loop; other site 398527017647 H-loop/switch region; other site 398527017648 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398527017649 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 398527017650 substrate binding site [chemical binding]; other site 398527017651 ATP binding site [chemical binding]; other site 398527017652 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 398527017653 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 398527017654 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527017655 PYR/PP interface [polypeptide binding]; other site 398527017656 dimer interface [polypeptide binding]; other site 398527017657 TPP binding site [chemical binding]; other site 398527017658 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527017659 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 398527017660 TPP-binding site [chemical binding]; other site 398527017661 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398527017662 KduI/IolB family; Region: KduI; cl01508 398527017663 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527017664 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527017665 Walker A/P-loop; other site 398527017666 ATP binding site [chemical binding]; other site 398527017667 Q-loop/lid; other site 398527017668 ABC transporter signature motif; other site 398527017669 Walker B; other site 398527017670 D-loop; other site 398527017671 H-loop/switch region; other site 398527017672 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527017673 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527017674 Walker A/P-loop; other site 398527017675 ATP binding site [chemical binding]; other site 398527017676 Q-loop/lid; other site 398527017677 ABC transporter signature motif; other site 398527017678 Walker B; other site 398527017679 D-loop; other site 398527017680 H-loop/switch region; other site 398527017681 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527017682 TM-ABC transporter signature motif; other site 398527017683 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527017684 TM-ABC transporter signature motif; other site 398527017685 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398527017686 active site 398527017687 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 398527017688 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 398527017689 nudix motif; other site 398527017690 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 398527017691 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 398527017692 tetramer interface [polypeptide binding]; other site 398527017693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527017694 catalytic residue [active] 398527017695 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 398527017696 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527017697 Helix-turn-helix domains; Region: HTH; cl00088 398527017698 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 398527017699 putative dimerization interface [polypeptide binding]; other site 398527017700 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 398527017701 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 398527017702 motif 1; other site 398527017703 active site 398527017704 motif 2; other site 398527017705 motif 3; other site 398527017706 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 398527017707 DHHA1 domain; Region: DHHA1; pfam02272 398527017708 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527017709 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527017710 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527017711 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 398527017712 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398527017713 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 398527017714 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398527017715 active site 398527017716 HIGH motif; other site 398527017717 nucleotide binding site [chemical binding]; other site 398527017718 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 398527017719 KMSKS motif; other site 398527017720 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 398527017721 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 398527017722 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527017723 substrate binding pocket [chemical binding]; other site 398527017724 membrane-bound complex binding site; other site 398527017725 hinge residues; other site 398527017726 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 398527017727 nudix motif; other site 398527017728 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 398527017729 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 398527017730 Phosphoesterase family; Region: Phosphoesterase; cl15450 398527017731 Domain of unknown function (DUF427); Region: DUF427; cl00998 398527017732 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 398527017733 Ligand Binding Site [chemical binding]; other site 398527017734 Bacitracin resistance protein BacA; Region: BacA; cl00858 398527017735 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 398527017736 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 398527017737 active site 398527017738 catalytic residues [active] 398527017739 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398527017740 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 398527017741 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 398527017742 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 398527017743 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398527017744 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398527017745 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 398527017746 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 398527017747 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 398527017748 MatE; Region: MatE; cl10513 398527017749 MatE; Region: MatE; cl10513 398527017750 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 398527017751 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 398527017752 catalytic core [active] 398527017753 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527017754 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 398527017755 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 398527017756 polyphosphate kinase; Provisional; Region: PRK05443 398527017757 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 398527017758 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 398527017759 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398527017760 putative active site [active] 398527017761 catalytic site [active] 398527017762 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 398527017763 putative domain interface [polypeptide binding]; other site 398527017764 putative active site [active] 398527017765 catalytic site [active] 398527017766 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398527017767 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398527017768 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527017769 dimer interface [polypeptide binding]; other site 398527017770 phosphorylation site [posttranslational modification] 398527017771 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527017772 ATP binding site [chemical binding]; other site 398527017773 Mg2+ binding site [ion binding]; other site 398527017774 G-X-G motif; other site 398527017775 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 398527017776 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527017777 active site 398527017778 phosphorylation site [posttranslational modification] 398527017779 intermolecular recognition site; other site 398527017780 dimerization interface [polypeptide binding]; other site 398527017781 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527017782 DNA binding site [nucleotide binding] 398527017783 transcriptional regulator PhoU; Provisional; Region: PRK11115 398527017784 PhoU domain; Region: PhoU; pfam01895 398527017785 PhoU domain; Region: PhoU; pfam01895 398527017786 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 398527017787 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 398527017788 Walker A/P-loop; other site 398527017789 ATP binding site [chemical binding]; other site 398527017790 Q-loop/lid; other site 398527017791 ABC transporter signature motif; other site 398527017792 Walker B; other site 398527017793 D-loop; other site 398527017794 H-loop/switch region; other site 398527017795 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 398527017796 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527017797 dimer interface [polypeptide binding]; other site 398527017798 conserved gate region; other site 398527017799 putative PBP binding loops; other site 398527017800 ABC-ATPase subunit interface; other site 398527017801 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527017802 dimer interface [polypeptide binding]; other site 398527017803 conserved gate region; other site 398527017804 putative PBP binding loops; other site 398527017805 ABC-ATPase subunit interface; other site 398527017806 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527017807 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398527017808 MULE transposase domain; Region: MULE; pfam10551 398527017809 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 398527017810 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 398527017811 active site 398527017812 substrate binding site [chemical binding]; other site 398527017813 metal binding site [ion binding]; metal-binding site 398527017814 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 398527017815 dihydropteroate synthase; Region: DHPS; TIGR01496 398527017816 substrate binding pocket [chemical binding]; other site 398527017817 dimer interface [polypeptide binding]; other site 398527017818 inhibitor binding site; inhibition site 398527017819 FtsH Extracellular; Region: FtsH_ext; pfam06480 398527017820 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 398527017821 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527017822 Walker A motif; other site 398527017823 ATP binding site [chemical binding]; other site 398527017824 Walker B motif; other site 398527017825 arginine finger; other site 398527017826 Peptidase family M41; Region: Peptidase_M41; pfam01434 398527017827 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527017828 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 398527017829 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 398527017830 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 398527017831 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 398527017832 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398527017833 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398527017834 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 398527017835 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398527017836 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527017837 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 398527017838 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398527017839 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527017840 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 398527017841 IMP binding site; other site 398527017842 dimer interface [polypeptide binding]; other site 398527017843 interdomain contacts; other site 398527017844 partial ornithine binding site; other site 398527017845 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 398527017846 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 398527017847 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 398527017848 catalytic site [active] 398527017849 subunit interface [polypeptide binding]; other site 398527017850 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527017851 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527017852 putative substrate translocation pore; other site 398527017853 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 398527017854 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527017855 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527017856 catalytic residue [active] 398527017857 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 398527017858 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 398527017859 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398527017860 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398527017861 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527017862 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 398527017863 RNA/DNA hybrid binding site [nucleotide binding]; other site 398527017864 active site 398527017865 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 398527017866 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 398527017867 active site 398527017868 catalytic site [active] 398527017869 substrate binding site [chemical binding]; other site 398527017870 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398527017871 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 398527017872 Walker A/P-loop; other site 398527017873 ATP binding site [chemical binding]; other site 398527017874 Q-loop/lid; other site 398527017875 ABC transporter signature motif; other site 398527017876 Walker B; other site 398527017877 D-loop; other site 398527017878 H-loop/switch region; other site 398527017879 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 398527017880 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 398527017881 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527017882 putative ADP-binding pocket [chemical binding]; other site 398527017883 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398527017884 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 398527017885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527017886 Walker A/P-loop; other site 398527017887 ATP binding site [chemical binding]; other site 398527017888 Q-loop/lid; other site 398527017889 ABC transporter signature motif; other site 398527017890 Walker B; other site 398527017891 D-loop; other site 398527017892 H-loop/switch region; other site 398527017893 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 398527017894 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 398527017895 active site 398527017896 homotetramer interface [polypeptide binding]; other site 398527017897 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 398527017898 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527017899 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 398527017900 Cu(I) binding site [ion binding]; other site 398527017901 Protein of unknown function (DUF461); Region: DUF461; cl01071 398527017902 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 398527017903 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527017904 GAF domain; Region: GAF; cl15785 398527017905 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527017906 metal binding site [ion binding]; metal-binding site 398527017907 active site 398527017908 I-site; other site 398527017909 TraB family; Region: TraB; cl12050 398527017910 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 398527017911 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 398527017912 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 398527017913 GIY-YIG motif/motif A; other site 398527017914 active site 398527017915 catalytic site [active] 398527017916 putative DNA binding site [nucleotide binding]; other site 398527017917 metal binding site [ion binding]; metal-binding site 398527017918 UvrB/uvrC motif; Region: UVR; pfam02151 398527017919 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 398527017920 ERCC4-type nuclease [DNA replication, recombination, and repair]; Region: MUS81; COG1948 398527017921 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 398527017922 elongation factor P; Validated; Region: PRK00529 398527017923 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 398527017924 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 398527017925 RNA binding site [nucleotide binding]; other site 398527017926 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 398527017927 RNA binding site [nucleotide binding]; other site 398527017928 CsbD-like; Region: CsbD; cl15799 398527017929 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398527017930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527017931 active site 398527017932 phosphorylation site [posttranslational modification] 398527017933 intermolecular recognition site; other site 398527017934 dimerization interface [polypeptide binding]; other site 398527017935 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527017936 Walker A motif; other site 398527017937 ATP binding site [chemical binding]; other site 398527017938 Walker B motif; other site 398527017939 Helix-turn-helix domains; Region: HTH; cl00088 398527017940 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 398527017941 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 398527017942 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 398527017943 active site 398527017944 hydrophilic channel; other site 398527017945 dimerization interface [polypeptide binding]; other site 398527017946 catalytic residues [active] 398527017947 active site lid [active] 398527017948 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 398527017949 Recombination protein O N terminal; Region: RecO_N; cl15812 398527017950 Recombination protein O C terminal; Region: RecO_C; pfam02565 398527017951 GTPase Era; Reviewed; Region: era; PRK00089 398527017952 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 398527017953 G1 box; other site 398527017954 GTP/Mg2+ binding site [chemical binding]; other site 398527017955 Switch I region; other site 398527017956 G2 box; other site 398527017957 Switch II region; other site 398527017958 G3 box; other site 398527017959 G4 box; other site 398527017960 G5 box; other site 398527017961 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 398527017962 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 398527017963 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 398527017964 dimerization interface [polypeptide binding]; other site 398527017965 active site 398527017966 metal binding site [ion binding]; metal-binding site 398527017967 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 398527017968 signal peptidase I; Provisional; Region: PRK10861 398527017969 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 398527017970 Catalytic site [active] 398527017971 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 398527017972 GTP-binding protein LepA; Provisional; Region: PRK05433 398527017973 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 398527017974 G1 box; other site 398527017975 putative GEF interaction site [polypeptide binding]; other site 398527017976 GTP/Mg2+ binding site [chemical binding]; other site 398527017977 Switch I region; other site 398527017978 G2 box; other site 398527017979 G3 box; other site 398527017980 Switch II region; other site 398527017981 G4 box; other site 398527017982 G5 box; other site 398527017983 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 398527017984 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 398527017985 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 398527017986 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398527017987 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 398527017988 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 398527017989 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 398527017990 protein binding site [polypeptide binding]; other site 398527017991 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 398527017992 protein binding site [polypeptide binding]; other site 398527017993 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 398527017994 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 398527017995 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 398527017996 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 398527017997 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527017998 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527017999 DNA binding residues [nucleotide binding] 398527018000 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 398527018001 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 398527018002 dimer interface [polypeptide binding]; other site 398527018003 active site 398527018004 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527018005 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527018006 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398527018007 NAD(P) binding site [chemical binding]; other site 398527018008 homotetramer interface [polypeptide binding]; other site 398527018009 homodimer interface [polypeptide binding]; other site 398527018010 active site 398527018011 Acyl transferase domain; Region: Acyl_transf_1; cl08282 398527018012 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398527018013 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398527018014 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 398527018015 dimer interface [polypeptide binding]; other site 398527018016 active site 398527018017 CoA binding pocket [chemical binding]; other site 398527018018 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 398527018019 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 398527018020 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 398527018021 Maf-like protein; Region: Maf; pfam02545 398527018022 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 398527018023 active site 398527018024 dimer interface [polypeptide binding]; other site 398527018025 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 398527018026 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 398527018027 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 398527018028 tandem repeat interface [polypeptide binding]; other site 398527018029 oligomer interface [polypeptide binding]; other site 398527018030 active site residues [active] 398527018031 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 398527018032 iron-sulfur cluster [ion binding]; other site 398527018033 [2Fe-2S] cluster binding site [ion binding]; other site 398527018034 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 398527018035 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527018036 motif II; other site 398527018037 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 398527018038 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 398527018039 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398527018040 active site 398527018041 ribonuclease E; Reviewed; Region: rne; PRK10811 398527018042 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 398527018043 homodimer interface [polypeptide binding]; other site 398527018044 oligonucleotide binding site [chemical binding]; other site 398527018045 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 398527018046 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527018047 FeS/SAM binding site; other site 398527018048 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 398527018049 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 398527018050 GTP binding site; other site 398527018051 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 398527018052 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 398527018053 dimer interface [polypeptide binding]; other site 398527018054 putative functional site; other site 398527018055 putative MPT binding site; other site 398527018056 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398527018057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527018058 Coenzyme A binding pocket [chemical binding]; other site 398527018059 RmuC family; Region: RmuC; pfam02646 398527018060 glyoxylate reductase; Reviewed; Region: PRK13243 398527018061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018062 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 398527018063 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 398527018064 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 398527018065 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 398527018066 active site 398527018067 Ferredoxin [Energy production and conversion]; Region: COG1146 398527018068 4Fe-4S binding domain; Region: Fer4; cl02805 398527018069 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 398527018070 CreA protein; Region: CreA; pfam05981 398527018071 Cupin domain; Region: Cupin_2; cl09118 398527018072 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527018073 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527018074 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527018075 AzlC protein; Region: AzlC; cl00570 398527018076 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 398527018077 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 398527018078 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 398527018079 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527018080 Family description; Region: UvrD_C_2; cl15862 398527018081 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 398527018082 multidrug efflux protein; Reviewed; Region: PRK01766 398527018083 MatE; Region: MatE; cl10513 398527018084 MatE; Region: MatE; cl10513 398527018085 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 398527018086 Membrane transport protein; Region: Mem_trans; cl09117 398527018087 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 398527018088 PLD-like domain; Region: PLDc_2; pfam13091 398527018089 putative active site [active] 398527018090 catalytic site [active] 398527018091 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 398527018092 PLD-like domain; Region: PLDc_2; pfam13091 398527018093 putative active site [active] 398527018094 catalytic site [active] 398527018095 fumarate hydratase; Reviewed; Region: fumC; PRK00485 398527018096 Class II fumarases; Region: Fumarase_classII; cd01362 398527018097 active site 398527018098 tetramer interface [polypeptide binding]; other site 398527018099 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 398527018100 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398527018101 conserved cys residue [active] 398527018102 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398527018103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527018104 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527018105 putative substrate translocation pore; other site 398527018106 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527018107 dimerization interface [polypeptide binding]; other site 398527018108 putative DNA binding site [nucleotide binding]; other site 398527018109 putative Zn2+ binding site [ion binding]; other site 398527018110 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 398527018111 dimerization interface [polypeptide binding]; other site 398527018112 active site 398527018113 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398527018114 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527018115 Walker A motif; other site 398527018116 ATP binding site [chemical binding]; other site 398527018117 Walker B motif; other site 398527018118 arginine finger; other site 398527018119 Helix-turn-helix domains; Region: HTH; cl00088 398527018120 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39G; cd02423 398527018121 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 398527018122 putative active site [active] 398527018123 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398527018124 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527018125 Walker A motif; other site 398527018126 ATP binding site [chemical binding]; other site 398527018127 Walker B motif; other site 398527018128 arginine finger; other site 398527018129 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 398527018130 folate binding site [chemical binding]; other site 398527018131 NADP+ binding site [chemical binding]; other site 398527018132 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 398527018133 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 398527018134 Protein of unknown function (DUF615); Region: DUF615; cl01147 398527018135 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 398527018136 MPT binding site; other site 398527018137 trimer interface [polypeptide binding]; other site 398527018138 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 398527018139 catalytic site [active] 398527018140 putative active site [active] 398527018141 putative substrate binding site [chemical binding]; other site 398527018142 dimer interface [polypeptide binding]; other site 398527018143 Peptidase family M48; Region: Peptidase_M48; cl12018 398527018144 GTPase RsgA; Reviewed; Region: PRK00098 398527018145 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 398527018146 RNA binding site [nucleotide binding]; other site 398527018147 homodimer interface [polypeptide binding]; other site 398527018148 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 398527018149 GTPase/Zn-binding domain interface [polypeptide binding]; other site 398527018150 GTP/Mg2+ binding site [chemical binding]; other site 398527018151 G4 box; other site 398527018152 G5 box; other site 398527018153 G1 box; other site 398527018154 Switch I region; other site 398527018155 G2 box; other site 398527018156 G3 box; other site 398527018157 Switch II region; other site 398527018158 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 398527018159 CobD/Cbib protein; Region: CobD_Cbib; cl00561 398527018160 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 398527018161 putative active site [active] 398527018162 putative CoA binding site [chemical binding]; other site 398527018163 nudix motif; other site 398527018164 metal binding site [ion binding]; metal-binding site 398527018165 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 398527018166 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 398527018167 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 398527018168 RimM N-terminal domain; Region: RimM; pfam01782 398527018169 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 398527018170 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 398527018171 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 398527018172 Domain of unknown function (DUF373); Region: DUF373; cl12079 398527018173 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 398527018174 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527018175 FeS/SAM binding site; other site 398527018176 Helix-turn-helix domains; Region: HTH; cl00088 398527018177 AsnC family; Region: AsnC_trans_reg; pfam01037 398527018178 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398527018179 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398527018180 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398527018181 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527018182 active site 398527018183 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398527018184 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 398527018185 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 398527018186 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398527018187 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 398527018188 Ligand binding site [chemical binding]; other site 398527018189 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398527018190 NMT1-like family; Region: NMT1_2; cl15260 398527018191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527018192 dimer interface [polypeptide binding]; other site 398527018193 conserved gate region; other site 398527018194 ABC-ATPase subunit interface; other site 398527018195 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 398527018196 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 398527018197 Walker A/P-loop; other site 398527018198 ATP binding site [chemical binding]; other site 398527018199 Q-loop/lid; other site 398527018200 ABC transporter signature motif; other site 398527018201 Walker B; other site 398527018202 D-loop; other site 398527018203 H-loop/switch region; other site 398527018204 NIL domain; Region: NIL; cl09633 398527018205 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 398527018206 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527018207 enoyl-CoA hydratase; Validated; Region: PRK08139 398527018208 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527018209 substrate binding site [chemical binding]; other site 398527018210 oxyanion hole (OAH) forming residues; other site 398527018211 trimer interface [polypeptide binding]; other site 398527018212 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 398527018213 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 398527018214 Transglycosylase SLT domain; Region: SLT_2; pfam13406 398527018215 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527018216 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527018217 catalytic residue [active] 398527018218 cysteine synthase B; Region: cysM; TIGR01138 398527018219 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 398527018220 dimer interface [polypeptide binding]; other site 398527018221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527018222 catalytic residue [active] 398527018223 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 398527018224 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 398527018225 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 398527018226 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 398527018227 NADP binding site [chemical binding]; other site 398527018228 homopentamer interface [polypeptide binding]; other site 398527018229 substrate binding site [chemical binding]; other site 398527018230 active site 398527018231 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 398527018232 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398527018233 putative ribose interaction site [chemical binding]; other site 398527018234 putative ADP binding site [chemical binding]; other site 398527018235 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 398527018236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018237 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398527018238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018239 tetratricopeptide repeat protein; Provisional; Region: PRK11788 398527018240 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527018241 binding surface 398527018242 TPR motif; other site 398527018243 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 398527018244 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 398527018245 IHF dimer interface [polypeptide binding]; other site 398527018246 IHF - DNA interface [nucleotide binding]; other site 398527018247 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 398527018248 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 398527018249 RNA binding site [nucleotide binding]; other site 398527018250 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 398527018251 RNA binding site [nucleotide binding]; other site 398527018252 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 398527018253 RNA binding site [nucleotide binding]; other site 398527018254 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 398527018255 RNA binding site [nucleotide binding]; other site 398527018256 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 398527018257 RNA binding site [nucleotide binding]; other site 398527018258 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 398527018259 RNA binding site [nucleotide binding]; other site 398527018260 cytidylate kinase; Provisional; Region: cmk; PRK00023 398527018261 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 398527018262 CMP-binding site; other site 398527018263 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 398527018264 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 398527018265 hinge; other site 398527018266 active site 398527018267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018268 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 398527018269 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527018270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527018271 homodimer interface [polypeptide binding]; other site 398527018272 catalytic residue [active] 398527018273 Chorismate mutase type II; Region: CM_2; cl00693 398527018274 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 398527018275 Prephenate dehydratase; Region: PDT; pfam00800 398527018276 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 398527018277 putative L-Phe binding site [chemical binding]; other site 398527018278 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 398527018279 homodimer interface [polypeptide binding]; other site 398527018280 substrate-cofactor binding pocket; other site 398527018281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527018282 catalytic residue [active] 398527018283 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 398527018284 DNA gyrase subunit A; Validated; Region: PRK05560 398527018285 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 398527018286 CAP-like domain; other site 398527018287 active site 398527018288 primary dimer interface [polypeptide binding]; other site 398527018289 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398527018290 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398527018291 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398527018292 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398527018293 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398527018294 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398527018295 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527018296 ligand binding site [chemical binding]; other site 398527018297 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 398527018298 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527018299 S-adenosylmethionine binding site [chemical binding]; other site 398527018300 phosphoglycolate phosphatase; Provisional; Region: PRK13222 398527018301 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527018302 motif II; other site 398527018303 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 398527018304 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 398527018305 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 398527018306 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 398527018307 Helix-turn-helix domains; Region: HTH; cl00088 398527018308 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 398527018309 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527018310 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 398527018311 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 398527018312 putative dimer interface [polypeptide binding]; other site 398527018313 [2Fe-2S] cluster binding site [ion binding]; other site 398527018314 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 398527018315 putative dimer interface [polypeptide binding]; other site 398527018316 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 398527018317 SLBB domain; Region: SLBB; pfam10531 398527018318 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 398527018319 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527018320 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 398527018321 catalytic loop [active] 398527018322 iron binding site [ion binding]; other site 398527018323 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 398527018324 4Fe-4S binding domain; Region: Fer4; cl02805 398527018325 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 398527018326 [4Fe-4S] binding site [ion binding]; other site 398527018327 molybdopterin cofactor binding site; other site 398527018328 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 398527018329 molybdopterin cofactor binding site; other site 398527018330 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 398527018331 hypothetical protein; Provisional; Region: PRK06184 398527018332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018333 Cation efflux family; Region: Cation_efflux; cl00316 398527018334 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527018335 binding surface 398527018336 TPR motif; other site 398527018337 TPR repeat; Region: TPR_11; pfam13414 398527018338 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527018339 binding surface 398527018340 TPR motif; other site 398527018341 TPR repeat; Region: TPR_11; pfam13414 398527018342 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527018343 binding surface 398527018344 TPR motif; other site 398527018345 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398527018346 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527018347 binding surface 398527018348 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398527018349 TPR motif; other site 398527018350 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 398527018351 citrate-proton symporter; Provisional; Region: PRK15075 398527018352 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527018353 putative substrate translocation pore; other site 398527018354 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398527018355 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527018356 Coenzyme A binding pocket [chemical binding]; other site 398527018357 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 398527018358 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 398527018359 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 398527018360 catalytic triad [active] 398527018361 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398527018362 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 398527018363 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 398527018364 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527018365 D-galactonate transporter; Region: 2A0114; TIGR00893 398527018366 putative substrate translocation pore; other site 398527018367 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398527018368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527018369 DNA-binding site [nucleotide binding]; DNA binding site 398527018370 FCD domain; Region: FCD; cl11656 398527018371 amidase; Provisional; Region: PRK07056 398527018372 Amidase; Region: Amidase; cl11426 398527018373 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 398527018374 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 398527018375 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398527018376 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398527018377 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 398527018378 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 398527018379 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 398527018380 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398527018381 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 398527018382 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 398527018383 XdhC Rossmann domain; Region: XdhC_C; pfam13478 398527018384 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 398527018385 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 398527018386 active site 398527018387 purine riboside binding site [chemical binding]; other site 398527018388 guanine deaminase; Provisional; Region: PRK09228 398527018389 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 398527018390 active site 398527018391 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 398527018392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018393 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527018394 S-adenosylmethionine binding site [chemical binding]; other site 398527018395 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 398527018396 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 398527018397 dimer interface [polypeptide binding]; other site 398527018398 active site 398527018399 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 398527018400 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 398527018401 dimer interface [polypeptide binding]; other site 398527018402 active site 398527018403 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527018404 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398527018405 NAD(P) binding site [chemical binding]; other site 398527018406 homotetramer interface [polypeptide binding]; other site 398527018407 homodimer interface [polypeptide binding]; other site 398527018408 active site 398527018409 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 398527018410 putative active site 1 [active] 398527018411 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 398527018412 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 398527018413 dimer interface [polypeptide binding]; other site 398527018414 active site 398527018415 Predicted exporter [General function prediction only]; Region: COG4258 398527018416 Protein export membrane protein; Region: SecD_SecF; cl14618 398527018417 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 398527018418 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 398527018419 active site 398527018420 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398527018421 active sites [active] 398527018422 tetramer interface [polypeptide binding]; other site 398527018423 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398527018424 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 398527018425 Ligand binding site; other site 398527018426 Putative Catalytic site; other site 398527018427 DXD motif; other site 398527018428 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398527018429 putative acyl-acceptor binding pocket; other site 398527018430 acyl-CoA synthetase; Validated; Region: PRK08308 398527018431 AMP-binding enzyme; Region: AMP-binding; cl15778 398527018432 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 398527018433 active site 2 [active] 398527018434 dimer interface [polypeptide binding]; other site 398527018435 active site 1 [active] 398527018436 Predicted membrane protein [Function unknown]; Region: COG4648 398527018437 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527018438 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527018439 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398527018440 putative acyl-acceptor binding pocket; other site 398527018441 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 398527018442 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 398527018443 aminopeptidase N; Provisional; Region: pepN; PRK14015 398527018444 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 398527018445 active site 398527018446 Zn binding site [ion binding]; other site 398527018447 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 398527018448 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527018449 fructose-1,6-bisphosphatase family protein; Region: PLN02628 398527018450 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 398527018451 AMP binding site [chemical binding]; other site 398527018452 metal binding site [ion binding]; metal-binding site 398527018453 active site 398527018454 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 398527018455 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 398527018456 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 398527018457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527018458 Walker A/P-loop; other site 398527018459 ATP binding site [chemical binding]; other site 398527018460 Q-loop/lid; other site 398527018461 ABC transporter signature motif; other site 398527018462 Walker B; other site 398527018463 D-loop; other site 398527018464 H-loop/switch region; other site 398527018465 Helix-turn-helix domains; Region: HTH; cl00088 398527018466 putative transposase OrfB; Reviewed; Region: PHA02517 398527018467 HTH-like domain; Region: HTH_21; pfam13276 398527018468 Integrase core domain; Region: rve; cl01316 398527018469 Integrase core domain; Region: rve_3; cl15866 398527018470 Chorismate mutase type II; Region: CM_2; cl00693 398527018471 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398527018472 active site 398527018473 catalytic site [active] 398527018474 substrate binding site [chemical binding]; other site 398527018475 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 398527018476 GIY-YIG motif/motif A; other site 398527018477 active site 398527018478 catalytic site [active] 398527018479 putative DNA binding site [nucleotide binding]; other site 398527018480 metal binding site [ion binding]; metal-binding site 398527018481 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 398527018482 DNA-binding site [nucleotide binding]; DNA binding site 398527018483 RNA-binding motif; other site 398527018484 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527018485 trimer interface [polypeptide binding]; other site 398527018486 eyelet of channel; other site 398527018487 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 398527018488 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398527018489 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398527018490 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 398527018491 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398527018492 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 398527018493 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398527018494 synthetase active site [active] 398527018495 NTP binding site [chemical binding]; other site 398527018496 metal binding site [ion binding]; metal-binding site 398527018497 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 398527018498 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 398527018499 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 398527018500 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 398527018501 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 398527018502 catalytic site [active] 398527018503 G-X2-G-X-G-K; other site 398527018504 hypothetical protein; Provisional; Region: PRK11820 398527018505 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 398527018506 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 398527018507 ribonuclease PH; Reviewed; Region: rph; PRK00173 398527018508 Ribonuclease PH; Region: RNase_PH_bact; cd11362 398527018509 hexamer interface [polypeptide binding]; other site 398527018510 active site 398527018511 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 398527018512 active site 398527018513 dimerization interface [polypeptide binding]; other site 398527018514 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 398527018515 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527018516 FeS/SAM binding site; other site 398527018517 HemN C-terminal domain; Region: HemN_C; pfam06969 398527018518 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 398527018519 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 398527018520 homotrimer interaction site [polypeptide binding]; other site 398527018521 putative active site [active] 398527018522 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527018523 putative substrate translocation pore; other site 398527018524 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 398527018525 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527018526 inhibitor-cofactor binding pocket; inhibition site 398527018527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527018528 catalytic residue [active] 398527018529 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 398527018530 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 398527018531 catalytic motif [active] 398527018532 Zn binding site [ion binding]; other site 398527018533 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 398527018534 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 398527018535 Lumazine binding domain; Region: Lum_binding; pfam00677 398527018536 Lumazine binding domain; Region: Lum_binding; pfam00677 398527018537 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 398527018538 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 398527018539 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 398527018540 dimerization interface [polypeptide binding]; other site 398527018541 active site 398527018542 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 398527018543 homopentamer interface [polypeptide binding]; other site 398527018544 active site 398527018545 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 398527018546 putative RNA binding site [nucleotide binding]; other site 398527018547 aminotransferase; Validated; Region: PRK07337 398527018548 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527018549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527018550 homodimer interface [polypeptide binding]; other site 398527018551 catalytic residue [active] 398527018552 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527018553 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527018554 catalytic residue [active] 398527018555 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 398527018556 LysE type translocator; Region: LysE; cl00565 398527018557 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 398527018558 tetramer interface [polypeptide binding]; other site 398527018559 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 398527018560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527018561 catalytic residue [active] 398527018562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018563 Uncharacterized conserved protein [Function unknown]; Region: COG5495 398527018564 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 398527018565 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 398527018566 YGGT family; Region: YGGT; cl00508 398527018567 YGGT family; Region: YGGT; cl00508 398527018568 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398527018569 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 398527018570 P-loop; other site 398527018571 Magnesium ion binding site [ion binding]; other site 398527018572 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 398527018573 Magnesium ion binding site [ion binding]; other site 398527018574 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527018575 S-adenosylmethionine binding site [chemical binding]; other site 398527018576 Bacitracin resistance protein BacA; Region: BacA; cl00858 398527018577 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 398527018578 Flagellin N-methylase; Region: FliB; cl00497 398527018579 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 398527018580 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527018581 FeS/SAM binding site; other site 398527018582 HemN C-terminal domain; Region: HemN_C; pfam06969 398527018583 aromatic amino acid transporter; Provisional; Region: PRK10238 398527018584 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527018585 pyruvate dehydrogenase; Provisional; Region: PRK09124 398527018586 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 398527018587 PYR/PP interface [polypeptide binding]; other site 398527018588 tetramer interface [polypeptide binding]; other site 398527018589 dimer interface [polypeptide binding]; other site 398527018590 TPP binding site [chemical binding]; other site 398527018591 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527018592 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 398527018593 TPP-binding site [chemical binding]; other site 398527018594 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 398527018595 SxDxEG motif; other site 398527018596 active site 398527018597 metal binding site [ion binding]; metal-binding site 398527018598 homopentamer interface [polypeptide binding]; other site 398527018599 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 398527018600 homodimer interface [polypeptide binding]; other site 398527018601 homotetramer interface [polypeptide binding]; other site 398527018602 active site pocket [active] 398527018603 cleavage site 398527018604 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 398527018605 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398527018606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527018607 dimer interface [polypeptide binding]; other site 398527018608 conserved gate region; other site 398527018609 putative PBP binding loops; other site 398527018610 ABC-ATPase subunit interface; other site 398527018611 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 398527018612 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527018613 dimer interface [polypeptide binding]; other site 398527018614 conserved gate region; other site 398527018615 putative PBP binding loops; other site 398527018616 ABC-ATPase subunit interface; other site 398527018617 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 398527018618 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 398527018619 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 398527018620 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527018621 Walker A/P-loop; other site 398527018622 ATP binding site [chemical binding]; other site 398527018623 Q-loop/lid; other site 398527018624 ABC transporter signature motif; other site 398527018625 Walker B; other site 398527018626 D-loop; other site 398527018627 H-loop/switch region; other site 398527018628 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527018629 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527018630 Walker A/P-loop; other site 398527018631 ATP binding site [chemical binding]; other site 398527018632 Q-loop/lid; other site 398527018633 ABC transporter signature motif; other site 398527018634 Walker B; other site 398527018635 D-loop; other site 398527018636 H-loop/switch region; other site 398527018637 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527018638 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 398527018639 active site 398527018640 dimer interface [polypeptide binding]; other site 398527018641 catalytic nucleophile [active] 398527018642 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398527018643 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398527018644 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398527018645 putative active site [active] 398527018646 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527018647 putative substrate translocation pore; other site 398527018648 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398527018649 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 398527018650 active site 398527018651 uracil binding [chemical binding]; other site 398527018652 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 398527018653 putative NAD(P) binding site [chemical binding]; other site 398527018654 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 398527018655 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527018656 catalytic loop [active] 398527018657 iron binding site [ion binding]; other site 398527018658 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 398527018659 FAD binding pocket [chemical binding]; other site 398527018660 FAD binding motif [chemical binding]; other site 398527018661 phosphate binding motif [ion binding]; other site 398527018662 beta-alpha-beta structure motif; other site 398527018663 NAD binding pocket [chemical binding]; other site 398527018664 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 398527018665 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 398527018666 inhibitor-cofactor binding pocket; inhibition site 398527018667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527018668 catalytic residue [active] 398527018669 putative acetyltransferase; Provisional; Region: PRK03624 398527018670 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398527018671 Coenzyme A binding pocket [chemical binding]; other site 398527018672 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527018673 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527018674 Walker A/P-loop; other site 398527018675 ATP binding site [chemical binding]; other site 398527018676 Q-loop/lid; other site 398527018677 ABC transporter signature motif; other site 398527018678 Walker B; other site 398527018679 D-loop; other site 398527018680 H-loop/switch region; other site 398527018681 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527018682 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527018683 Walker A/P-loop; other site 398527018684 ATP binding site [chemical binding]; other site 398527018685 Q-loop/lid; other site 398527018686 ABC transporter signature motif; other site 398527018687 Walker B; other site 398527018688 D-loop; other site 398527018689 H-loop/switch region; other site 398527018690 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527018691 TM-ABC transporter signature motif; other site 398527018692 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527018693 TM-ABC transporter signature motif; other site 398527018694 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527018695 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 398527018696 dimerization interface [polypeptide binding]; other site 398527018697 ligand binding site [chemical binding]; other site 398527018698 LytB protein; Region: LYTB; cl00507 398527018699 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 398527018700 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 398527018701 hypothetical protein; Reviewed; Region: PRK00024 398527018702 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 398527018703 MPN+ (JAMM) motif; other site 398527018704 Zinc-binding site [ion binding]; other site 398527018705 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 398527018706 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 398527018707 L-aspartate oxidase; Provisional; Region: PRK09077 398527018708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018709 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398527018710 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 398527018711 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 398527018712 dimerization interface [polypeptide binding]; other site 398527018713 active site 398527018714 Quinolinate synthetase A protein; Region: NadA; cl00420 398527018715 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 398527018716 Di-iron ligands [ion binding]; other site 398527018717 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398527018718 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398527018719 16S rRNA methyltransferase B; Provisional; Region: PRK14901 398527018720 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527018721 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 398527018722 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 398527018723 active site 398527018724 substrate binding site [chemical binding]; other site 398527018725 cosubstrate binding site; other site 398527018726 catalytic site [active] 398527018727 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 398527018728 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 398527018729 active site 398527018730 Riboflavin kinase; Region: Flavokinase; cl03312 398527018731 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 398527018732 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398527018733 active site 398527018734 HIGH motif; other site 398527018735 nucleotide binding site [chemical binding]; other site 398527018736 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398527018737 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 398527018738 active site 398527018739 KMSKS motif; other site 398527018740 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 398527018741 tRNA binding surface [nucleotide binding]; other site 398527018742 anticodon binding site; other site 398527018743 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398527018744 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 398527018745 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 398527018746 Flavoprotein; Region: Flavoprotein; cl08021 398527018747 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 398527018748 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 398527018749 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398527018750 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 398527018751 trimer interface [polypeptide binding]; other site 398527018752 active site 398527018753 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 398527018754 Clp amino terminal domain; Region: Clp_N; pfam02861 398527018755 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527018756 Walker A motif; other site 398527018757 ATP binding site [chemical binding]; other site 398527018758 Walker B motif; other site 398527018759 arginine finger; other site 398527018760 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527018761 Walker A motif; other site 398527018762 ATP binding site [chemical binding]; other site 398527018763 Walker B motif; other site 398527018764 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 398527018765 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 398527018766 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 398527018767 DNA-binding site [nucleotide binding]; DNA binding site 398527018768 RNA-binding motif; other site 398527018769 isocitrate dehydrogenase; Validated; Region: PRK07362 398527018770 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 398527018771 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398527018772 pseudouridine synthase; Region: TIGR00093 398527018773 active site 398527018774 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 398527018775 elongation factor G; Reviewed; Region: PRK00007 398527018776 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 398527018777 G1 box; other site 398527018778 putative GEF interaction site [polypeptide binding]; other site 398527018779 GTP/Mg2+ binding site [chemical binding]; other site 398527018780 Switch I region; other site 398527018781 G2 box; other site 398527018782 G3 box; other site 398527018783 Switch II region; other site 398527018784 G4 box; other site 398527018785 G5 box; other site 398527018786 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 398527018787 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 398527018788 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 398527018789 Cupin domain; Region: Cupin_2; cl09118 398527018790 High-affinity nickel-transport protein; Region: NicO; cl00964 398527018791 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 398527018792 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 398527018793 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398527018794 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527018795 dimer interface [polypeptide binding]; other site 398527018796 conserved gate region; other site 398527018797 putative PBP binding loops; other site 398527018798 ABC-ATPase subunit interface; other site 398527018799 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398527018800 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527018801 putative PBP binding loops; other site 398527018802 dimer interface [polypeptide binding]; other site 398527018803 ABC-ATPase subunit interface; other site 398527018804 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 398527018805 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527018806 Walker A/P-loop; other site 398527018807 ATP binding site [chemical binding]; other site 398527018808 Q-loop/lid; other site 398527018809 ABC transporter signature motif; other site 398527018810 Walker B; other site 398527018811 D-loop; other site 398527018812 H-loop/switch region; other site 398527018813 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527018814 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527018815 Walker A/P-loop; other site 398527018816 ATP binding site [chemical binding]; other site 398527018817 Q-loop/lid; other site 398527018818 ABC transporter signature motif; other site 398527018819 Walker B; other site 398527018820 D-loop; other site 398527018821 H-loop/switch region; other site 398527018822 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527018823 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527018824 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398527018825 active site 398527018826 catalytic tetrad [active] 398527018827 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398527018828 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527018829 DNA-binding site [nucleotide binding]; DNA binding site 398527018830 UTRA domain; Region: UTRA; cl01230 398527018831 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398527018832 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398527018833 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398527018834 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 398527018835 active site 398527018836 coenzyme A binding site [chemical binding]; other site 398527018837 citrylCoA binding site [chemical binding]; other site 398527018838 dimer interface [polypeptide binding]; other site 398527018839 Citrate synthase; Region: Citrate_synt; pfam00285 398527018840 oxalacetate/citrate binding site [chemical binding]; other site 398527018841 catalytic triad [active] 398527018842 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 398527018843 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 398527018844 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527018845 DNA-binding site [nucleotide binding]; DNA binding site 398527018846 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527018847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527018848 homodimer interface [polypeptide binding]; other site 398527018849 catalytic residue [active] 398527018850 putative transporter; Provisional; Region: PRK10504 398527018851 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527018852 putative substrate translocation pore; other site 398527018853 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 398527018854 RNA polymerase sigma factor SigI; Provisional; Region: sigI; PRK09635 398527018855 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527018856 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527018857 Clp protease; Region: CLP_protease; pfam00574 398527018858 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 398527018859 oligomer interface [polypeptide binding]; other site 398527018860 active site residues [active] 398527018861 Uncharacterized conserved protein [Function unknown]; Region: COG1432 398527018862 LabA_like proteins; Region: LabA_like; cd06167 398527018863 putative metal binding site [ion binding]; other site 398527018864 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 398527018865 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 398527018866 superoxide dismutase; Provisional; Region: PRK10543 398527018867 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 398527018868 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 398527018869 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 398527018870 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 398527018871 generic binding surface II; other site 398527018872 generic binding surface I; other site 398527018873 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 398527018874 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 398527018875 Trm112p-like protein; Region: Trm112p; cl01066 398527018876 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 398527018877 Ligand binding site; other site 398527018878 oligomer interface; other site 398527018879 adenylate kinase; Reviewed; Region: adk; PRK00279 398527018880 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 398527018881 AMP-binding site [chemical binding]; other site 398527018882 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 398527018883 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527018884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018885 NAD(P) binding site [chemical binding]; other site 398527018886 active site 398527018887 Uncharacterized conserved protein [Function unknown]; Region: COG2912 398527018888 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 398527018889 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 398527018890 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 398527018891 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 398527018892 ornithine carbamoyltransferase; Provisional; Region: PRK00779 398527018893 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398527018894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018895 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 398527018896 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 398527018897 ANP binding site [chemical binding]; other site 398527018898 Substrate Binding Site II [chemical binding]; other site 398527018899 Substrate Binding Site I [chemical binding]; other site 398527018900 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 398527018901 FAD binding domain; Region: FAD_binding_4; pfam01565 398527018902 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 398527018903 Protein of unknown function (DUF520); Region: DUF520; cl00723 398527018904 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 398527018905 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 398527018906 putative deacylase active site [active] 398527018907 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 398527018908 AMP-binding enzyme; Region: AMP-binding; cl15778 398527018909 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 398527018910 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 398527018911 active site 398527018912 Int/Topo IB signature motif; other site 398527018913 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 398527018914 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 398527018915 DNA binding site [nucleotide binding] 398527018916 active site 398527018917 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 398527018918 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 398527018919 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 398527018920 AMIN domain; Region: AMIN; pfam11741 398527018921 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 398527018922 active site 398527018923 metal binding site [ion binding]; metal-binding site 398527018924 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 398527018925 EamA-like transporter family; Region: EamA; cl01037 398527018926 Pirin-related protein [General function prediction only]; Region: COG1741 398527018927 Cupin domain; Region: Cupin_2; cl09118 398527018928 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398527018929 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 398527018930 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 398527018931 catalytic residues [active] 398527018932 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 398527018933 putative ATP binding site [chemical binding]; other site 398527018934 putative substrate interface [chemical binding]; other site 398527018935 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 398527018936 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398527018937 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 398527018938 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 398527018939 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527018940 S-adenosylmethionine binding site [chemical binding]; other site 398527018941 Protein of unknown function DUF72; Region: DUF72; cl00777 398527018942 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 398527018943 Flavin Reductases; Region: FlaRed; cl00801 398527018944 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527018945 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527018946 putative DNA binding site [nucleotide binding]; other site 398527018947 putative Zn2+ binding site [ion binding]; other site 398527018948 AsnC family; Region: AsnC_trans_reg; pfam01037 398527018949 Putative cyclase; Region: Cyclase; cl00814 398527018950 kynureninase; Region: kynureninase; TIGR01814 398527018951 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 398527018952 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398527018953 catalytic residue [active] 398527018954 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 398527018955 short chain dehydrogenase; Provisional; Region: PRK07060 398527018956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527018957 NAD(P) binding site [chemical binding]; other site 398527018958 active site 398527018959 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 398527018960 uncharacterized xylulose kinase-like proteins, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 398527018961 N- and C-terminal domain interface [polypeptide binding]; other site 398527018962 putative active site [active] 398527018963 catalytic site [active] 398527018964 metal binding site [ion binding]; metal-binding site 398527018965 putative xylulose binding site [chemical binding]; other site 398527018966 putative ATP binding site [chemical binding]; other site 398527018967 putative homodimer interface [polypeptide binding]; other site 398527018968 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398527018969 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 398527018970 putative NAD(P) binding site [chemical binding]; other site 398527018971 catalytic Zn binding site [ion binding]; other site 398527018972 structural Zn binding site [ion binding]; other site 398527018973 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 398527018974 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527018975 TM-ABC transporter signature motif; other site 398527018976 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398527018977 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527018978 Walker A/P-loop; other site 398527018979 ATP binding site [chemical binding]; other site 398527018980 Q-loop/lid; other site 398527018981 ABC transporter signature motif; other site 398527018982 Walker B; other site 398527018983 D-loop; other site 398527018984 H-loop/switch region; other site 398527018985 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527018986 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398527018987 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 398527018988 putative ligand binding site [chemical binding]; other site 398527018989 Cupin domain; Region: Cupin_2; cl09118 398527018990 Helix-turn-helix domain; Region: HTH_18; pfam12833 398527018991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527018992 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 398527018993 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 398527018994 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 398527018995 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 398527018996 N- and C-terminal domain interface [polypeptide binding]; other site 398527018997 active site 398527018998 catalytic site [active] 398527018999 metal binding site [ion binding]; metal-binding site 398527019000 xylulose binding site [chemical binding]; other site 398527019001 putative ATP binding site [chemical binding]; other site 398527019002 homodimer interface [polypeptide binding]; other site 398527019003 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 398527019004 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 398527019005 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 398527019006 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 398527019007 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 398527019008 Walker A/P-loop; other site 398527019009 ATP binding site [chemical binding]; other site 398527019010 Q-loop/lid; other site 398527019011 ABC transporter signature motif; other site 398527019012 Walker B; other site 398527019013 D-loop; other site 398527019014 H-loop/switch region; other site 398527019015 TOBE domain; Region: TOBE_2; cl01440 398527019016 TOBE domain; Region: TOBE_2; cl01440 398527019017 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 398527019018 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527019019 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398527019020 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527019021 dimer interface [polypeptide binding]; other site 398527019022 conserved gate region; other site 398527019023 putative PBP binding loops; other site 398527019024 ABC-ATPase subunit interface; other site 398527019025 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 398527019026 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527019027 dimer interface [polypeptide binding]; other site 398527019028 conserved gate region; other site 398527019029 putative PBP binding loops; other site 398527019030 ABC-ATPase subunit interface; other site 398527019031 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398527019032 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527019033 sorbitol dehydrogenase; Provisional; Region: PRK07067 398527019034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527019035 NAD(P) binding site [chemical binding]; other site 398527019036 active site 398527019037 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398527019038 metal binding site 2 [ion binding]; metal-binding site 398527019039 putative DNA binding helix; other site 398527019040 metal binding site 1 [ion binding]; metal-binding site 398527019041 dimer interface [polypeptide binding]; other site 398527019042 structural Zn2+ binding site [ion binding]; other site 398527019043 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 398527019044 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 398527019045 metal binding site [ion binding]; metal-binding site 398527019046 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 398527019047 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 398527019048 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 398527019049 Predicted esterase [General function prediction only]; Region: COG0627 398527019050 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 398527019051 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 398527019052 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 398527019053 substrate binding site [chemical binding]; other site 398527019054 catalytic Zn binding site [ion binding]; other site 398527019055 NAD binding site [chemical binding]; other site 398527019056 structural Zn binding site [ion binding]; other site 398527019057 dimer interface [polypeptide binding]; other site 398527019058 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 398527019059 N- and C-terminal domain interface [polypeptide binding]; other site 398527019060 D-xylulose kinase; Region: XylB; TIGR01312 398527019061 active site 398527019062 MgATP binding site [chemical binding]; other site 398527019063 catalytic site [active] 398527019064 metal binding site [ion binding]; metal-binding site 398527019065 carbohydrate binding site [chemical binding]; other site 398527019066 xanthine permease; Region: pbuX; TIGR03173 398527019067 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527019068 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398527019069 Protein export membrane protein; Region: SecD_SecF; cl14618 398527019070 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398527019071 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 398527019072 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527019073 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 398527019074 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 398527019075 Helix-turn-helix domains; Region: HTH; cl00088 398527019076 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 398527019077 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 398527019078 catalytic triad [active] 398527019079 conserved cis-peptide bond; other site 398527019080 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 398527019081 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398527019082 conserved cys residue [active] 398527019083 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398527019084 hydrophobic ligand binding site; other site 398527019085 Domain of unknown function (DUF427); Region: DUF427; cl00998 398527019086 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 398527019087 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 398527019088 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 398527019089 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 398527019090 protein binding site [polypeptide binding]; other site 398527019091 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 398527019092 protein binding site [polypeptide binding]; other site 398527019093 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 398527019094 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527019095 ATP binding site [chemical binding]; other site 398527019096 Mg2+ binding site [ion binding]; other site 398527019097 G-X-G motif; other site 398527019098 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 398527019099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527019100 active site 398527019101 phosphorylation site [posttranslational modification] 398527019102 intermolecular recognition site; other site 398527019103 dimerization interface [polypeptide binding]; other site 398527019104 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527019105 DNA binding site [nucleotide binding] 398527019106 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 398527019107 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527019108 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398527019109 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 398527019110 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 398527019111 active site 398527019112 catalytic triad [active] 398527019113 oxyanion hole [active] 398527019114 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 398527019115 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 398527019116 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 398527019117 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527019118 AIR carboxylase; Region: AIRC; cl00310 398527019119 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 398527019120 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 398527019121 ATP binding site [chemical binding]; other site 398527019122 active site 398527019123 substrate binding site [chemical binding]; other site 398527019124 hypothetical protein; Provisional; Region: PRK08185 398527019125 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 398527019126 intersubunit interface [polypeptide binding]; other site 398527019127 active site 398527019128 zinc binding site [ion binding]; other site 398527019129 Na+ binding site [ion binding]; other site 398527019130 pyruvate kinase; Provisional; Region: PRK05826 398527019131 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 398527019132 domain interfaces; other site 398527019133 active site 398527019134 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 398527019135 Phosphoglycerate kinase; Region: PGK; pfam00162 398527019136 substrate binding site [chemical binding]; other site 398527019137 hinge regions; other site 398527019138 ADP binding site [chemical binding]; other site 398527019139 catalytic site [active] 398527019140 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 398527019141 AzlC protein; Region: AzlC; cl00570 398527019142 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 398527019143 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 398527019144 homodimer interface [polypeptide binding]; other site 398527019145 substrate-cofactor binding pocket; other site 398527019146 catalytic residue [active] 398527019147 Zinc-finger domain; Region: zf-CHCC; cl01821 398527019148 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398527019149 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 398527019150 putative active site [active] 398527019151 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527019152 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 398527019153 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 398527019154 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 398527019155 Peptidase family M48; Region: Peptidase_M48; cl12018 398527019156 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 398527019157 trimer interface [polypeptide binding]; other site 398527019158 dimer interface [polypeptide binding]; other site 398527019159 putative active site [active] 398527019160 O-Antigen ligase; Region: Wzy_C; cl04850 398527019161 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 398527019162 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 398527019163 Pilin (bacterial filament); Region: Pilin; pfam00114 398527019164 Integral membrane protein TerC family; Region: TerC; cl10468 398527019165 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 398527019166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527019167 CoA-ligase; Region: Ligase_CoA; cl02894 398527019168 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 398527019169 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527019170 CoA-ligase; Region: Ligase_CoA; cl02894 398527019171 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 398527019172 RecX family; Region: RecX; cl00936 398527019173 recombinase A; Provisional; Region: recA; PRK09354 398527019174 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 398527019175 hexamer interface [polypeptide binding]; other site 398527019176 Walker A motif; other site 398527019177 ATP binding site [chemical binding]; other site 398527019178 Walker B motif; other site 398527019179 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 398527019180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527019181 active site 398527019182 phosphorylation site [posttranslational modification] 398527019183 intermolecular recognition site; other site 398527019184 dimerization interface [polypeptide binding]; other site 398527019185 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527019186 DNA binding site [nucleotide binding] 398527019187 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398527019188 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527019189 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527019190 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527019191 dimer interface [polypeptide binding]; other site 398527019192 phosphorylation site [posttranslational modification] 398527019193 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527019194 ATP binding site [chemical binding]; other site 398527019195 Mg2+ binding site [ion binding]; other site 398527019196 G-X-G motif; other site 398527019197 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527019198 putative substrate translocation pore; other site 398527019199 metabolite-proton symporter; Region: 2A0106; TIGR00883 398527019200 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527019201 Helix-turn-helix domains; Region: HTH; cl00088 398527019202 Helix-turn-helix domains; Region: HTH; cl00088 398527019203 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527019204 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527019205 putative substrate translocation pore; other site 398527019206 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527019207 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527019208 DNA-binding site [nucleotide binding]; DNA binding site 398527019209 FCD domain; Region: FCD; cl11656 398527019210 galactonate dehydratase; Provisional; Region: PRK14017 398527019211 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 398527019212 putative active site pocket [active] 398527019213 putative metal binding site [ion binding]; other site 398527019214 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 398527019215 Bacterial Ig-like domain; Region: Big_5; cl01012 398527019216 Cytochrome c; Region: Cytochrom_C; cl11414 398527019217 Cytochrome c; Region: Cytochrom_C; cl11414 398527019218 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398527019219 Cytochrome c [Energy production and conversion]; Region: COG3258 398527019220 Cytochrome c; Region: Cytochrom_C; cl11414 398527019221 Haemolysin-III related; Region: HlyIII; cl03831 398527019222 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 398527019223 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 398527019224 ATP binding site [chemical binding]; other site 398527019225 Mg++ binding site [ion binding]; other site 398527019226 motif III; other site 398527019227 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527019228 nucleotide binding region [chemical binding]; other site 398527019229 ATP-binding site [chemical binding]; other site 398527019230 Protein of unknown function (DUF418); Region: DUF418; cl12135 398527019231 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 398527019232 dinuclear metal binding motif [ion binding]; other site 398527019233 citrate-proton symporter; Provisional; Region: PRK15075 398527019234 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527019235 putative substrate translocation pore; other site 398527019236 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 398527019237 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398527019238 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 398527019239 Helix-turn-helix domains; Region: HTH; cl00088 398527019240 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 398527019241 Helix-turn-helix domains; Region: HTH; cl00088 398527019242 WHG domain; Region: WHG; pfam13305 398527019243 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 398527019244 glycerol kinase; Provisional; Region: glpK; PRK00047 398527019245 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 398527019246 N- and C-terminal domain interface [polypeptide binding]; other site 398527019247 active site 398527019248 MgATP binding site [chemical binding]; other site 398527019249 catalytic site [active] 398527019250 metal binding site [ion binding]; metal-binding site 398527019251 glycerol binding site [chemical binding]; other site 398527019252 homotetramer interface [polypeptide binding]; other site 398527019253 homodimer interface [polypeptide binding]; other site 398527019254 FBP binding site [chemical binding]; other site 398527019255 protein IIAGlc interface [polypeptide binding]; other site 398527019256 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 398527019257 amphipathic channel; other site 398527019258 Asn-Pro-Ala signature motifs; other site 398527019259 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 398527019260 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527019261 active site 398527019262 motif I; other site 398527019263 motif II; other site 398527019264 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 398527019265 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 398527019266 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527019267 non-specific DNA binding site [nucleotide binding]; other site 398527019268 salt bridge; other site 398527019269 sequence-specific DNA binding site [nucleotide binding]; other site 398527019270 Cupin domain; Region: Cupin_2; cl09118 398527019271 MFS transport protein AraJ; Provisional; Region: PRK10091 398527019272 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527019273 putative substrate translocation pore; other site 398527019274 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 398527019275 dimer interface [polypeptide binding]; other site 398527019276 putative metal binding site [ion binding]; other site 398527019277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527019278 Helix-turn-helix domains; Region: HTH; cl00088 398527019279 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 398527019280 putative effector binding pocket; other site 398527019281 dimerization interface [polypeptide binding]; other site 398527019282 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 398527019283 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398527019284 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 398527019285 FeS/SAM binding site; other site 398527019286 TRAM domain; Region: TRAM; cl01282 398527019287 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 398527019288 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527019289 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 398527019290 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 398527019291 putative active site pocket [active] 398527019292 dimerization interface [polypeptide binding]; other site 398527019293 putative catalytic residue [active] 398527019294 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 398527019295 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 398527019296 Transporter associated domain; Region: CorC_HlyC; cl08393 398527019297 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 398527019298 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 398527019299 putative active site [active] 398527019300 catalytic triad [active] 398527019301 putative dimer interface [polypeptide binding]; other site 398527019302 Peptidase family M48; Region: Peptidase_M48; cl12018 398527019303 putative glutathione S-transferase; Provisional; Region: PRK10357 398527019304 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 398527019305 putative C-terminal domain interface [polypeptide binding]; other site 398527019306 putative GSH binding site (G-site) [chemical binding]; other site 398527019307 putative dimer interface [polypeptide binding]; other site 398527019308 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 398527019309 dimer interface [polypeptide binding]; other site 398527019310 N-terminal domain interface [polypeptide binding]; other site 398527019311 putative substrate binding pocket (H-site) [chemical binding]; other site 398527019312 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 398527019313 proline aminopeptidase P II; Provisional; Region: PRK10879 398527019314 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 398527019315 active site 398527019316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527019317 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 398527019318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527019319 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 398527019320 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 398527019321 FMN binding site [chemical binding]; other site 398527019322 active site 398527019323 catalytic residues [active] 398527019324 substrate binding site [chemical binding]; other site 398527019325 Helix-turn-helix domains; Region: HTH; cl00088 398527019326 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 398527019327 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 398527019328 purine monophosphate binding site [chemical binding]; other site 398527019329 dimer interface [polypeptide binding]; other site 398527019330 putative catalytic residues [active] 398527019331 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 398527019332 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 398527019333 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 398527019334 active site 398527019335 putative DNA-binding cleft [nucleotide binding]; other site 398527019336 dimer interface [polypeptide binding]; other site 398527019337 LysE type translocator; Region: LysE; cl00565 398527019338 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 398527019339 RuvA N terminal domain; Region: RuvA_N; pfam01330 398527019340 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 398527019341 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 398527019342 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527019343 Walker A motif; other site 398527019344 ATP binding site [chemical binding]; other site 398527019345 Walker B motif; other site 398527019346 arginine finger; other site 398527019347 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 398527019348 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 398527019349 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 398527019350 catalytic core [active] 398527019351 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 398527019352 putative active site [active] 398527019353 dimerization interface [polypeptide binding]; other site 398527019354 putative tRNAtyr binding site [nucleotide binding]; other site 398527019355 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 398527019356 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 398527019357 active site 398527019358 HIGH motif; other site 398527019359 dimer interface [polypeptide binding]; other site 398527019360 KMSKS motif; other site 398527019361 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 398527019362 RNA binding surface [nucleotide binding]; other site 398527019363 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 398527019364 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 398527019365 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 398527019366 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 398527019367 23S rRNA interface [nucleotide binding]; other site 398527019368 L3 interface [polypeptide binding]; other site 398527019369 OsmC-like protein; Region: OsmC; cl00767 398527019370 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 398527019371 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 398527019372 active site 398527019373 substrate binding pocket [chemical binding]; other site 398527019374 dimer interface [polypeptide binding]; other site 398527019375 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 398527019376 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 398527019377 putative active site [active] 398527019378 putative dimer interface [polypeptide binding]; other site 398527019379 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398527019380 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 398527019381 Walker A/P-loop; other site 398527019382 ATP binding site [chemical binding]; other site 398527019383 Q-loop/lid; other site 398527019384 ABC transporter signature motif; other site 398527019385 Walker B; other site 398527019386 D-loop; other site 398527019387 H-loop/switch region; other site 398527019388 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527019389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527019390 dimer interface [polypeptide binding]; other site 398527019391 conserved gate region; other site 398527019392 putative PBP binding loops; other site 398527019393 ABC-ATPase subunit interface; other site 398527019394 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398527019395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527019396 dimer interface [polypeptide binding]; other site 398527019397 conserved gate region; other site 398527019398 putative PBP binding loops; other site 398527019399 ABC-ATPase subunit interface; other site 398527019400 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 398527019401 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527019402 substrate binding pocket [chemical binding]; other site 398527019403 membrane-bound complex binding site; other site 398527019404 hinge residues; other site 398527019405 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 398527019406 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398527019407 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 398527019408 NAD(P) binding site [chemical binding]; other site 398527019409 cell density-dependent motility repressor; Provisional; Region: PRK10082 398527019410 Helix-turn-helix domains; Region: HTH; cl00088 398527019411 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527019412 dimerization interface [polypeptide binding]; other site 398527019413 adenylosuccinate lyase; Provisional; Region: PRK09285 398527019414 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 398527019415 tetramer interface [polypeptide binding]; other site 398527019416 active site 398527019417 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 398527019418 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 398527019419 ATP-binding site [chemical binding]; other site 398527019420 Gluconate-6-phosphate binding site [chemical binding]; other site 398527019421 GntP family permease; Region: GntP_permease; pfam02447 398527019422 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 398527019423 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 398527019424 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 398527019425 active site 398527019426 intersubunit interface [polypeptide binding]; other site 398527019427 catalytic residue [active] 398527019428 Dehydratase family; Region: ILVD_EDD; cl00340 398527019429 6-phosphogluconate dehydratase; Region: edd; TIGR01196 398527019430 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 398527019431 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398527019432 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 398527019433 putative active site [active] 398527019434 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527019435 ligand binding site [chemical binding]; other site 398527019436 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 398527019437 Haemagglutinin; Region: HIM; pfam05662 398527019438 Haemagglutinin; Region: HIM; pfam05662 398527019439 Haemagglutinin; Region: HIM; pfam05662 398527019440 Haemagglutinin; Region: HIM; pfam05662 398527019441 Haemagglutinin; Region: HIM; pfam05662 398527019442 Haemagglutinin; Region: HIM; pfam05662 398527019443 Haemagglutinin; Region: HIM; pfam05662 398527019444 Haemagglutinin; Region: HIM; pfam05662 398527019445 Haemagglutinin; Region: HIM; pfam05662 398527019446 Haemagglutinin; Region: HIM; pfam05662 398527019447 Haemagglutinin; Region: HIM; pfam05662 398527019448 Haemagglutinin; Region: HIM; pfam05662 398527019449 Haemagglutinin; Region: HIM; pfam05662 398527019450 Haemagglutinin; Region: HIM; pfam05662 398527019451 Haemagglutinin; Region: HIM; pfam05662 398527019452 Haemagglutinin; Region: HIM; pfam05662 398527019453 Haemagglutinin; Region: HIM; pfam05662 398527019454 Haemagglutinin; Region: HIM; pfam05662 398527019455 YadA-like C-terminal region; Region: YadA; pfam03895 398527019456 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 398527019457 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 398527019458 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 398527019459 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 398527019460 putative catalytic cysteine [active] 398527019461 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 398527019462 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 398527019463 Lipopolysaccharide-assembly; Region: LptE; cl01125 398527019464 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 398527019465 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 398527019466 HIGH motif; other site 398527019467 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398527019468 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398527019469 active site 398527019470 KMSKS motif; other site 398527019471 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 398527019472 tRNA binding surface [nucleotide binding]; other site 398527019473 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 398527019474 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 398527019475 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398527019476 dihydrodipicolinate reductase; Provisional; Region: PRK00048 398527019477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527019478 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 398527019479 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 398527019480 ferric uptake regulator; Provisional; Region: fur; PRK09462 398527019481 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398527019482 metal binding site 2 [ion binding]; metal-binding site 398527019483 putative DNA binding helix; other site 398527019484 metal binding site 1 [ion binding]; metal-binding site 398527019485 dimer interface [polypeptide binding]; other site 398527019486 structural Zn2+ binding site [ion binding]; other site 398527019487 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 398527019488 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 398527019489 allantoicase; Provisional; Region: PRK13257 398527019490 Allantoicase repeat; Region: Allantoicase; pfam03561 398527019491 Allantoicase repeat; Region: Allantoicase; pfam03561 398527019492 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 398527019493 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398527019494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398527019495 DNA-binding site [nucleotide binding]; DNA binding site 398527019496 FCD domain; Region: FCD; cl11656 398527019497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527019498 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 398527019499 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 398527019500 transketolase; Reviewed; Region: PRK12753 398527019501 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 398527019502 TPP-binding site [chemical binding]; other site 398527019503 dimer interface [polypeptide binding]; other site 398527019504 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 398527019505 PYR/PP interface [polypeptide binding]; other site 398527019506 dimer interface [polypeptide binding]; other site 398527019507 TPP binding site [chemical binding]; other site 398527019508 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398527019509 spermidine synthase; Provisional; Region: PRK00811 398527019510 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527019511 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 398527019512 putative dimer interface [polypeptide binding]; other site 398527019513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 398527019514 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 398527019515 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 398527019516 putative RNAase interaction site [polypeptide binding]; other site 398527019517 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 398527019518 active site 398527019519 barstar interaction site; other site 398527019520 putative transposase OrfB; Reviewed; Region: PHA02517 398527019521 Integrase core domain; Region: rve; cl01316 398527019522 Integrase core domain; Region: rve_3; cl15866 398527019523 malic enzyme; Reviewed; Region: PRK12862 398527019524 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398527019525 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 398527019526 putative NAD(P) binding site [chemical binding]; other site 398527019527 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 398527019528 thiamine monophosphate kinase; Provisional; Region: PRK05731 398527019529 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 398527019530 ATP binding site [chemical binding]; other site 398527019531 dimerization interface [polypeptide binding]; other site 398527019532 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 398527019533 tetramer interfaces [polypeptide binding]; other site 398527019534 binuclear metal-binding site [ion binding]; other site 398527019535 Competence-damaged protein; Region: CinA; cl00666 398527019536 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 398527019537 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 398527019538 active site 398527019539 dimer interface [polypeptide binding]; other site 398527019540 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 398527019541 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 398527019542 active site 398527019543 catalytic residues [active] 398527019544 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398527019545 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398527019546 classical (c) SDRs; Region: SDR_c; cd05233 398527019547 NAD(P) binding site [chemical binding]; other site 398527019548 active site 398527019549 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527019550 TM-ABC transporter signature motif; other site 398527019551 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 398527019552 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527019553 Walker A/P-loop; other site 398527019554 ATP binding site [chemical binding]; other site 398527019555 Q-loop/lid; other site 398527019556 ABC transporter signature motif; other site 398527019557 Walker B; other site 398527019558 D-loop; other site 398527019559 H-loop/switch region; other site 398527019560 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527019561 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 398527019562 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 398527019563 ligand binding site [chemical binding]; other site 398527019564 short chain dehydrogenase; Provisional; Region: PRK07063 398527019565 classical (c) SDRs; Region: SDR_c; cd05233 398527019566 NAD(P) binding site [chemical binding]; other site 398527019567 active site 398527019568 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 398527019569 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 398527019570 active site 398527019571 intersubunit interface [polypeptide binding]; other site 398527019572 catalytic residue [active] 398527019573 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 398527019574 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 398527019575 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398527019576 Helix-turn-helix domains; Region: HTH; cl00088 398527019577 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527019578 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398527019579 MULE transposase domain; Region: MULE; pfam10551 398527019580 Transglycosylase; Region: Transgly; cl07896 398527019581 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 398527019582 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398527019583 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398527019584 shikimate binding site; other site 398527019585 NAD(P) binding site [chemical binding]; other site 398527019586 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 398527019587 RNB domain; Region: RNB; pfam00773 398527019588 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 398527019589 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398527019590 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 398527019591 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398527019592 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398527019593 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398527019594 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 398527019595 catalytic residues [active] 398527019596 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 398527019597 active site 398527019598 trimer interface [polypeptide binding]; other site 398527019599 dimer interface [polypeptide binding]; other site 398527019600 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 398527019601 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 398527019602 carboxyltransferase (CT) interaction site; other site 398527019603 biotinylation site [posttranslational modification]; other site 398527019604 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 398527019605 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398527019606 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527019607 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 398527019608 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 398527019609 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527019610 S-adenosylmethionine binding site [chemical binding]; other site 398527019611 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 398527019612 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 398527019613 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 398527019614 dimer interface [polypeptide binding]; other site 398527019615 catalytic triad [active] 398527019616 peroxidatic and resolving cysteines [active] 398527019617 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398527019618 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 398527019619 substrate binding site [chemical binding]; other site 398527019620 ATP binding site [chemical binding]; other site 398527019621 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 398527019622 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 398527019623 dimer interface [polypeptide binding]; other site 398527019624 putative radical transfer pathway; other site 398527019625 diiron center [ion binding]; other site 398527019626 tyrosyl radical; other site 398527019627 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 398527019628 ATP cone domain; Region: ATP-cone; pfam03477 398527019629 Class I ribonucleotide reductase; Region: RNR_I; cd01679 398527019630 active site 398527019631 dimer interface [polypeptide binding]; other site 398527019632 catalytic residues [active] 398527019633 effector binding site; other site 398527019634 R2 peptide binding site; other site 398527019635 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 398527019636 amidase catalytic site [active] 398527019637 Zn binding residues [ion binding]; other site 398527019638 substrate binding site [chemical binding]; other site 398527019639 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398527019640 signal recognition particle protein; Provisional; Region: PRK10867 398527019641 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 398527019642 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 398527019643 P loop; other site 398527019644 GTP binding site [chemical binding]; other site 398527019645 Signal peptide binding domain; Region: SRP_SPB; pfam02978 398527019646 Methyl-coenzyme M reductase operon protein C; Region: MCR_C; cl01674 398527019647 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398527019648 active site 398527019649 MarC family integral membrane protein; Region: MarC; cl00919 398527019650 prolyl-tRNA synthetase; Provisional; Region: PRK09194 398527019651 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 398527019652 dimer interface [polypeptide binding]; other site 398527019653 motif 1; other site 398527019654 active site 398527019655 motif 2; other site 398527019656 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 398527019657 putative deacylase active site [active] 398527019658 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 398527019659 active site 398527019660 motif 3; other site 398527019661 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 398527019662 anticodon binding site; other site 398527019663 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 398527019664 putative active site [active] 398527019665 Ap4A binding site [chemical binding]; other site 398527019666 nudix motif; other site 398527019667 putative metal binding site [ion binding]; other site 398527019668 CNP1-like family; Region: CNP1; pfam08750 398527019669 gamma-glutamyl kinase; Provisional; Region: PRK05429 398527019670 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 398527019671 nucleotide binding site [chemical binding]; other site 398527019672 homotetrameric interface [polypeptide binding]; other site 398527019673 putative phosphate binding site [ion binding]; other site 398527019674 putative allosteric binding site; other site 398527019675 PUA domain; Region: PUA; cl00607 398527019676 GTPase CgtA; Reviewed; Region: obgE; PRK12299 398527019677 GTP1/OBG; Region: GTP1_OBG; pfam01018 398527019678 Obg GTPase; Region: Obg; cd01898 398527019679 G1 box; other site 398527019680 GTP/Mg2+ binding site [chemical binding]; other site 398527019681 Switch I region; other site 398527019682 G2 box; other site 398527019683 G3 box; other site 398527019684 Switch II region; other site 398527019685 G4 box; other site 398527019686 G5 box; other site 398527019687 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 398527019688 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 398527019689 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398527019690 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398527019691 substrate binding pocket [chemical binding]; other site 398527019692 chain length determination region; other site 398527019693 substrate-Mg2+ binding site; other site 398527019694 catalytic residues [active] 398527019695 aspartate-rich region 1; other site 398527019696 active site lid residues [active] 398527019697 aspartate-rich region 2; other site 398527019698 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 398527019699 Domain of unknown function DUF21; Region: DUF21; pfam01595 398527019700 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 398527019701 Transporter associated domain; Region: CorC_HlyC; cl08393 398527019702 Type II/IV secretion system protein; Region: T2SE; pfam00437 398527019703 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527019704 Walker A motif; other site 398527019705 ATP binding site [chemical binding]; other site 398527019706 Walker B motif; other site 398527019707 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398527019708 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 398527019709 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 398527019710 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 398527019711 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 398527019712 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 398527019713 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 398527019714 CoA-binding site [chemical binding]; other site 398527019715 ATP-binding [chemical binding]; other site 398527019716 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 398527019717 Domain of unknown function (DUF329); Region: DUF329; cl01144 398527019718 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 398527019719 active site 398527019720 8-oxo-dGMP binding site [chemical binding]; other site 398527019721 nudix motif; other site 398527019722 metal binding site [ion binding]; metal-binding site 398527019723 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 398527019724 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527019725 Walker A motif; other site 398527019726 ATP binding site [chemical binding]; other site 398527019727 Walker B motif; other site 398527019728 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 398527019729 heterotetramer interface [polypeptide binding]; other site 398527019730 active site pocket [active] 398527019731 cleavage site 398527019732 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 398527019733 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 398527019734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527019735 nucleotide binding region [chemical binding]; other site 398527019736 ATP-binding site [chemical binding]; other site 398527019737 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 398527019738 SEC-C motif; Region: SEC-C; pfam02810 398527019739 Protein of unknown function (DUF721); Region: DUF721; cl02324 398527019740 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 398527019741 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 398527019742 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 398527019743 catalytic triad [active] 398527019744 dimer interface [polypeptide binding]; other site 398527019745 cell division protein FtsZ; Validated; Region: PRK09330 398527019746 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 398527019747 nucleotide binding site [chemical binding]; other site 398527019748 SulA interaction site; other site 398527019749 cell division protein FtsA; Region: ftsA; TIGR01174 398527019750 Cell division protein FtsA; Region: FtsA; cl11496 398527019751 Cell division protein FtsA; Region: FtsA; cl11496 398527019752 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 398527019753 Cell division protein FtsQ; Region: FtsQ; pfam03799 398527019754 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 398527019755 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 398527019756 ATP-grasp domain; Region: ATP-grasp_4; cl03087 398527019757 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 398527019758 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398527019759 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398527019760 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398527019761 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 398527019762 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 398527019763 active site 398527019764 homodimer interface [polypeptide binding]; other site 398527019765 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 398527019766 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 398527019767 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398527019768 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398527019769 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 398527019770 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 398527019771 Mg++ binding site [ion binding]; other site 398527019772 putative catalytic motif [active] 398527019773 putative substrate binding site [chemical binding]; other site 398527019774 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398527019775 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 398527019776 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398527019777 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398527019778 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 398527019779 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398527019780 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398527019781 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398527019782 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 398527019783 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398527019784 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527019785 Septum formation initiator; Region: DivIC; cl11433 398527019786 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 398527019787 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527019788 cell division protein MraZ; Reviewed; Region: PRK00326 398527019789 MraZ protein; Region: MraZ; pfam02381 398527019790 MraZ protein; Region: MraZ; pfam02381 398527019791 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 398527019792 diiron binding motif [ion binding]; other site 398527019793 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527019794 trimer interface [polypeptide binding]; other site 398527019795 eyelet of channel; other site 398527019796 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 398527019797 AMP-binding enzyme; Region: AMP-binding; cl15778 398527019798 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527019799 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398527019800 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 398527019801 putative [4Fe-4S] binding site [ion binding]; other site 398527019802 putative molybdopterin cofactor binding site [chemical binding]; other site 398527019803 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 398527019804 putative molybdopterin cofactor binding site; other site 398527019805 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398527019806 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398527019807 metal binding site [ion binding]; metal-binding site 398527019808 putative dimer interface [polypeptide binding]; other site 398527019809 enoyl-CoA hydratase; Provisional; Region: PRK05862 398527019810 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527019811 substrate binding site [chemical binding]; other site 398527019812 oxyanion hole (OAH) forming residues; other site 398527019813 trimer interface [polypeptide binding]; other site 398527019814 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398527019815 NAD(P) binding site [chemical binding]; other site 398527019816 catalytic residues [active] 398527019817 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 398527019818 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 398527019819 dimer interface [polypeptide binding]; other site 398527019820 active site 398527019821 enoyl-CoA hydratase; Provisional; Region: PRK08140 398527019822 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 398527019823 substrate binding site [chemical binding]; other site 398527019824 oxyanion hole (OAH) forming residues; other site 398527019825 trimer interface [polypeptide binding]; other site 398527019826 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 398527019827 CoenzymeA binding site [chemical binding]; other site 398527019828 subunit interaction site [polypeptide binding]; other site 398527019829 PHB binding site; other site 398527019830 AMP-binding enzyme; Region: AMP-binding; cl15778 398527019831 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 398527019832 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 398527019833 MltA specific insert domain; Region: MltA; cl08398 398527019834 3D domain; Region: 3D; cl01439 398527019835 Protein of unknown function (DUF525); Region: DUF525; cl01119 398527019836 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 398527019837 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 398527019838 substrate binding site [chemical binding]; other site 398527019839 hexamer interface [polypeptide binding]; other site 398527019840 metal binding site [ion binding]; metal-binding site 398527019841 phosphoglycolate phosphatase; Provisional; Region: PRK13222 398527019842 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527019843 motif II; other site 398527019844 anthranilate synthase component I; Provisional; Region: PRK13565 398527019845 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 398527019846 chorismate binding enzyme; Region: Chorismate_bind; cl10555 398527019847 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 398527019848 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 398527019849 glutamine binding [chemical binding]; other site 398527019850 catalytic triad [active] 398527019851 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 398527019852 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398527019853 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 398527019854 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 398527019855 active site 398527019856 ribulose/triose binding site [chemical binding]; other site 398527019857 phosphate binding site [ion binding]; other site 398527019858 substrate (anthranilate) binding pocket [chemical binding]; other site 398527019859 product (indole) binding pocket [chemical binding]; other site 398527019860 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 398527019861 putative active site [active] 398527019862 putative metal binding residues [ion binding]; other site 398527019863 signature motif; other site 398527019864 putative triphosphate binding site [ion binding]; other site 398527019865 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 398527019866 ligand binding site [chemical binding]; other site 398527019867 active site 398527019868 UGI interface [polypeptide binding]; other site 398527019869 catalytic site [active] 398527019870 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527019871 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 398527019872 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 398527019873 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 398527019874 protein binding site [polypeptide binding]; other site 398527019875 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 398527019876 dimerization domain [polypeptide binding]; other site 398527019877 dimer interface [polypeptide binding]; other site 398527019878 catalytic residues [active] 398527019879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527019880 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 398527019881 GTP-binding protein YchF; Reviewed; Region: PRK09601 398527019882 YchF GTPase; Region: YchF; cd01900 398527019883 G1 box; other site 398527019884 GTP/Mg2+ binding site [chemical binding]; other site 398527019885 Switch I region; other site 398527019886 G2 box; other site 398527019887 Switch II region; other site 398527019888 G3 box; other site 398527019889 G4 box; other site 398527019890 G5 box; other site 398527019891 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 398527019892 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 398527019893 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 398527019894 putative active site [active] 398527019895 catalytic site [active] 398527019896 putative metal binding site [ion binding]; other site 398527019897 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527019898 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398527019899 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 398527019900 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527019901 dimer interface [polypeptide binding]; other site 398527019902 conserved gate region; other site 398527019903 putative PBP binding loops; other site 398527019904 ABC-ATPase subunit interface; other site 398527019905 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527019906 dimer interface [polypeptide binding]; other site 398527019907 conserved gate region; other site 398527019908 putative PBP binding loops; other site 398527019909 ABC-ATPase subunit interface; other site 398527019910 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398527019911 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 398527019912 Walker A/P-loop; other site 398527019913 ATP binding site [chemical binding]; other site 398527019914 Q-loop/lid; other site 398527019915 ABC transporter signature motif; other site 398527019916 Walker B; other site 398527019917 D-loop; other site 398527019918 H-loop/switch region; other site 398527019919 TOBE domain; Region: TOBE_2; cl01440 398527019920 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 398527019921 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 398527019922 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527019923 Walker A/P-loop; other site 398527019924 ATP binding site [chemical binding]; other site 398527019925 Q-loop/lid; other site 398527019926 ABC transporter signature motif; other site 398527019927 Walker B; other site 398527019928 D-loop; other site 398527019929 H-loop/switch region; other site 398527019930 ABC transporter; Region: ABC_tran_2; pfam12848 398527019931 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 398527019932 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398527019933 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 398527019934 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527019935 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398527019936 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398527019937 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 398527019938 active site 398527019939 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398527019940 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527019941 active site 398527019942 phosphorylation site [posttranslational modification] 398527019943 intermolecular recognition site; other site 398527019944 dimerization interface [polypeptide binding]; other site 398527019945 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527019946 DNA binding site [nucleotide binding] 398527019947 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 398527019948 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 398527019949 tRNA; other site 398527019950 putative tRNA binding site [nucleotide binding]; other site 398527019951 putative NADP binding site [chemical binding]; other site 398527019952 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 398527019953 peptide chain release factor 1; Validated; Region: prfA; PRK00591 398527019954 RF-1 domain; Region: RF-1; cl02875 398527019955 RF-1 domain; Region: RF-1; cl02875 398527019956 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 398527019957 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527019958 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 398527019959 putative GSH binding site [chemical binding]; other site 398527019960 catalytic residues [active] 398527019961 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 398527019962 Flavoprotein; Region: Flavoprotein; cl08021 398527019963 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 398527019964 putative active site [active] 398527019965 metal binding site [ion binding]; metal-binding site 398527019966 amino acid transporter; Region: 2A0306; TIGR00909 398527019967 Spore germination protein; Region: Spore_permease; cl15802 398527019968 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 398527019969 DNA-binding site [nucleotide binding]; DNA binding site 398527019970 RNA-binding motif; other site 398527019971 putative chaperone; Provisional; Region: PRK11678 398527019972 benzoate transport; Region: 2A0115; TIGR00895 398527019973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527019974 putative substrate translocation pore; other site 398527019975 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527019976 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 398527019977 putative FMN binding site [chemical binding]; other site 398527019978 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398527019979 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527019980 putative substrate translocation pore; other site 398527019981 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527019982 Helix-turn-helix domains; Region: HTH; cl00088 398527019983 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 398527019984 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527019985 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 398527019986 HI0933-like protein; Region: HI0933_like; pfam03486 398527019987 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527019988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527019989 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 398527019990 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 398527019991 S-adenosylmethionine binding site [chemical binding]; other site 398527019992 Stringent starvation protein B; Region: SspB; cl01120 398527019993 stringent starvation protein A; Provisional; Region: sspA; PRK09481 398527019994 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 398527019995 C-terminal domain interface [polypeptide binding]; other site 398527019996 putative GSH binding site (G-site) [chemical binding]; other site 398527019997 dimer interface [polypeptide binding]; other site 398527019998 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 398527019999 dimer interface [polypeptide binding]; other site 398527020000 N-terminal domain interface [polypeptide binding]; other site 398527020001 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 398527020002 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 398527020003 Qi binding site; other site 398527020004 intrachain domain interface; other site 398527020005 interchain domain interface [polypeptide binding]; other site 398527020006 cytochrome b; Provisional; Region: CYTB; MTH00145 398527020007 heme bH binding site [chemical binding]; other site 398527020008 heme bL binding site [chemical binding]; other site 398527020009 Qo binding site; other site 398527020010 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 398527020011 interchain domain interface [polypeptide binding]; other site 398527020012 intrachain domain interface; other site 398527020013 Qi binding site; other site 398527020014 Qo binding site; other site 398527020015 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 398527020016 [2Fe-2S] cluster binding site [ion binding]; other site 398527020017 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 398527020018 Uncharacterized conserved protein [Function unknown]; Region: COG0327 398527020019 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 398527020020 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 398527020021 protein binding site [polypeptide binding]; other site 398527020022 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 398527020023 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 398527020024 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 398527020025 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 398527020026 nucleotide binding site/active site [active] 398527020027 HIT family signature motif; other site 398527020028 catalytic residue [active] 398527020029 Predicted membrane protein [Function unknown]; Region: COG3671 398527020030 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 398527020031 metal binding site [ion binding]; metal-binding site 398527020032 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 398527020033 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 398527020034 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 398527020035 substrate binding site [chemical binding]; other site 398527020036 glutamase interaction surface [polypeptide binding]; other site 398527020037 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 398527020038 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 398527020039 catalytic residues [active] 398527020040 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 398527020041 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 398527020042 putative active site [active] 398527020043 oxyanion strand; other site 398527020044 catalytic triad [active] 398527020045 MarC family integral membrane protein; Region: MarC; cl00919 398527020046 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 398527020047 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 398527020048 putative active site pocket [active] 398527020049 4-fold oligomerization interface [polypeptide binding]; other site 398527020050 metal binding residues [ion binding]; metal-binding site 398527020051 3-fold/trimer interface [polypeptide binding]; other site 398527020052 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 398527020053 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 398527020054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527020055 homodimer interface [polypeptide binding]; other site 398527020056 catalytic residue [active] 398527020057 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 398527020058 histidinol dehydrogenase; Region: hisD; TIGR00069 398527020059 NAD binding site [chemical binding]; other site 398527020060 dimerization interface [polypeptide binding]; other site 398527020061 product binding site; other site 398527020062 substrate binding site [chemical binding]; other site 398527020063 zinc binding site [ion binding]; other site 398527020064 catalytic residues [active] 398527020065 ATP phosphoribosyltransferase; Region: HisG; cl15266 398527020066 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 398527020067 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 398527020068 hinge; other site 398527020069 active site 398527020070 BolA-like protein; Region: BolA; cl00386 398527020071 ABC-2 type transporter; Region: ABC2_membrane; cl11417 398527020072 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398527020073 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 398527020074 Walker A/P-loop; other site 398527020075 ATP binding site [chemical binding]; other site 398527020076 Q-loop/lid; other site 398527020077 ABC transporter signature motif; other site 398527020078 Walker B; other site 398527020079 D-loop; other site 398527020080 H-loop/switch region; other site 398527020081 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 398527020082 anti sigma factor interaction site; other site 398527020083 regulatory phosphorylation site [posttranslational modification]; other site 398527020084 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 398527020085 VacJ like lipoprotein; Region: VacJ; cl01073 398527020086 mce related protein; Region: MCE; pfam02470 398527020087 Permease; Region: Permease; cl00510 398527020088 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 398527020089 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 398527020090 Walker A/P-loop; other site 398527020091 ATP binding site [chemical binding]; other site 398527020092 Q-loop/lid; other site 398527020093 ABC transporter signature motif; other site 398527020094 Walker B; other site 398527020095 D-loop; other site 398527020096 H-loop/switch region; other site 398527020097 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 398527020098 thiamine phosphate binding site [chemical binding]; other site 398527020099 active site 398527020100 pyrophosphate binding site [ion binding]; other site 398527020101 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 398527020102 ThiS interaction site; other site 398527020103 putative active site [active] 398527020104 tetramer interface [polypeptide binding]; other site 398527020105 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 398527020106 thiS-thiF/thiG interaction site; other site 398527020107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527020108 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 398527020109 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 398527020110 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 398527020111 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 398527020112 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 398527020113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527020114 NAD(P) binding site [chemical binding]; other site 398527020115 active site 398527020116 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398527020117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527020118 active site 398527020119 phosphorylation site [posttranslational modification] 398527020120 intermolecular recognition site; other site 398527020121 dimerization interface [polypeptide binding]; other site 398527020122 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527020123 DNA binding site [nucleotide binding] 398527020124 Flagellar L-ring protein; Region: FlgH; cl00905 398527020125 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398527020126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527020127 active site 398527020128 phosphorylation site [posttranslational modification] 398527020129 intermolecular recognition site; other site 398527020130 dimerization interface [polypeptide binding]; other site 398527020131 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527020132 DNA binding site [nucleotide binding] 398527020133 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527020134 dimerization interface [polypeptide binding]; other site 398527020135 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527020136 dimer interface [polypeptide binding]; other site 398527020137 phosphorylation site [posttranslational modification] 398527020138 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527020139 ATP binding site [chemical binding]; other site 398527020140 Mg2+ binding site [ion binding]; other site 398527020141 G-X-G motif; other site 398527020142 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 398527020143 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 398527020144 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 398527020145 benzoate transport; Region: 2A0115; TIGR00895 398527020146 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527020147 putative substrate translocation pore; other site 398527020148 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398527020149 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398527020150 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 398527020151 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398527020152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527020153 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 398527020154 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 398527020155 active site 398527020156 dimer interface [polypeptide binding]; other site 398527020157 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 398527020158 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 398527020159 active site 398527020160 FMN binding site [chemical binding]; other site 398527020161 substrate binding site [chemical binding]; other site 398527020162 3Fe-4S cluster binding site [ion binding]; other site 398527020163 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 398527020164 domain interface; other site 398527020165 Transposase IS200 like; Region: Y1_Tnp; cl00848 398527020166 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 398527020167 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 398527020168 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 398527020169 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398527020170 Zn2+ binding site [ion binding]; other site 398527020171 Mg2+ binding site [ion binding]; other site 398527020172 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 398527020173 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 398527020174 active site 398527020175 dimer interface [polypeptide binding]; other site 398527020176 metal binding site [ion binding]; metal-binding site 398527020177 shikimate kinase; Reviewed; Region: aroK; PRK00131 398527020178 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 398527020179 ADP binding site [chemical binding]; other site 398527020180 magnesium binding site [ion binding]; other site 398527020181 putative shikimate binding site; other site 398527020182 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 398527020183 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398527020184 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398527020185 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 398527020186 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 398527020187 Transglycosylase; Region: Transgly; cl07896 398527020188 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 398527020189 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 398527020190 diaminopimelate decarboxylase; Region: lysA; TIGR01048 398527020191 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 398527020192 active site 398527020193 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398527020194 substrate binding site [chemical binding]; other site 398527020195 catalytic residues [active] 398527020196 dimer interface [polypeptide binding]; other site 398527020197 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 398527020198 TMAO/DMSO reductase; Reviewed; Region: PRK05363 398527020199 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 398527020200 Moco binding site; other site 398527020201 metal coordination site [ion binding]; other site 398527020202 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398527020203 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 398527020204 ResB-like family; Region: ResB; pfam05140 398527020205 Cytochrome c; Region: Cytochrom_C; cl11414 398527020206 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 398527020207 Cytochrome c; Region: Cytochrom_C; cl11414 398527020208 Predicted GTPase [General function prediction only]; Region: COG0218 398527020209 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 398527020210 G1 box; other site 398527020211 GTP/Mg2+ binding site [chemical binding]; other site 398527020212 Switch I region; other site 398527020213 G2 box; other site 398527020214 G3 box; other site 398527020215 Switch II region; other site 398527020216 G4 box; other site 398527020217 G5 box; other site 398527020218 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 398527020219 dimer interface [polypeptide binding]; other site 398527020220 active site 398527020221 aspartate-rich active site metal binding site; other site 398527020222 allosteric magnesium binding site [ion binding]; other site 398527020223 Schiff base residues; other site 398527020224 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 398527020225 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 398527020226 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398527020227 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 398527020228 DsbD alpha interface [polypeptide binding]; other site 398527020229 catalytic residues [active] 398527020230 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 398527020231 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 398527020232 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 398527020233 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 398527020234 alphaNTD homodimer interface [polypeptide binding]; other site 398527020235 alphaNTD - beta interaction site [polypeptide binding]; other site 398527020236 alphaNTD - beta' interaction site [polypeptide binding]; other site 398527020237 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 398527020238 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 398527020239 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 398527020240 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 398527020241 RNA binding surface [nucleotide binding]; other site 398527020242 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 398527020243 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 398527020244 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 398527020245 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 398527020246 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 398527020247 rRNA binding site [nucleotide binding]; other site 398527020248 predicted 30S ribosome binding site; other site 398527020249 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 398527020250 SecY translocase; Region: SecY; pfam00344 398527020251 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 398527020252 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 398527020253 23S rRNA binding site [nucleotide binding]; other site 398527020254 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 398527020255 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 398527020256 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 398527020257 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 398527020258 5S rRNA interface [nucleotide binding]; other site 398527020259 L27 interface [polypeptide binding]; other site 398527020260 23S rRNA interface [nucleotide binding]; other site 398527020261 L5 interface [polypeptide binding]; other site 398527020262 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 398527020263 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398527020264 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398527020265 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 398527020266 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 398527020267 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 398527020268 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 398527020269 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 398527020270 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 398527020271 KOW motif; Region: KOW; cl00354 398527020272 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 398527020273 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 398527020274 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 398527020275 23S rRNA interface [nucleotide binding]; other site 398527020276 putative translocon interaction site; other site 398527020277 signal recognition particle (SRP54) interaction site; other site 398527020278 L23 interface [polypeptide binding]; other site 398527020279 trigger factor interaction site; other site 398527020280 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 398527020281 23S rRNA interface [nucleotide binding]; other site 398527020282 5S rRNA interface [nucleotide binding]; other site 398527020283 putative antibiotic binding site [chemical binding]; other site 398527020284 L25 interface [polypeptide binding]; other site 398527020285 L27 interface [polypeptide binding]; other site 398527020286 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 398527020287 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 398527020288 G-X-X-G motif; other site 398527020289 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 398527020290 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 398527020291 putative translocon binding site; other site 398527020292 protein-rRNA interface [nucleotide binding]; other site 398527020293 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 398527020294 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 398527020295 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 398527020296 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 398527020297 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 398527020298 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 398527020299 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 398527020300 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 398527020301 elongation factor Tu; Reviewed; Region: PRK00049 398527020302 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398527020303 G1 box; other site 398527020304 GEF interaction site [polypeptide binding]; other site 398527020305 GTP/Mg2+ binding site [chemical binding]; other site 398527020306 Switch I region; other site 398527020307 G2 box; other site 398527020308 G3 box; other site 398527020309 Switch II region; other site 398527020310 G4 box; other site 398527020311 G5 box; other site 398527020312 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 398527020313 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 398527020314 Antibiotic Binding Site [chemical binding]; other site 398527020315 elongation factor G; Reviewed; Region: PRK00007 398527020316 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 398527020317 G1 box; other site 398527020318 putative GEF interaction site [polypeptide binding]; other site 398527020319 GTP/Mg2+ binding site [chemical binding]; other site 398527020320 Switch I region; other site 398527020321 G2 box; other site 398527020322 G3 box; other site 398527020323 Switch II region; other site 398527020324 G4 box; other site 398527020325 G5 box; other site 398527020326 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 398527020327 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 398527020328 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 398527020329 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 398527020330 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 398527020331 S17 interaction site [polypeptide binding]; other site 398527020332 S8 interaction site; other site 398527020333 16S rRNA interaction site [nucleotide binding]; other site 398527020334 streptomycin interaction site [chemical binding]; other site 398527020335 23S rRNA interaction site [nucleotide binding]; other site 398527020336 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 398527020337 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 398527020338 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527020339 ATP binding site [chemical binding]; other site 398527020340 putative Mg++ binding site [ion binding]; other site 398527020341 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 398527020342 nucleotide binding region [chemical binding]; other site 398527020343 ATP-binding site [chemical binding]; other site 398527020344 RQC domain; Region: RQC; cl09632 398527020345 HRDC domain; Region: HRDC; cl02578 398527020346 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 398527020347 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 398527020348 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 398527020349 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 398527020350 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 398527020351 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 398527020352 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 398527020353 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 398527020354 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 398527020355 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 398527020356 DNA binding site [nucleotide binding] 398527020357 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 398527020358 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 398527020359 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 398527020360 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 398527020361 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 398527020362 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 398527020363 RPB12 interaction site [polypeptide binding]; other site 398527020364 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 398527020365 RPB11 interaction site [polypeptide binding]; other site 398527020366 RPB12 interaction site [polypeptide binding]; other site 398527020367 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 398527020368 RPB3 interaction site [polypeptide binding]; other site 398527020369 RPB1 interaction site [polypeptide binding]; other site 398527020370 RPB11 interaction site [polypeptide binding]; other site 398527020371 RPB10 interaction site [polypeptide binding]; other site 398527020372 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 398527020373 peripheral dimer interface [polypeptide binding]; other site 398527020374 core dimer interface [polypeptide binding]; other site 398527020375 L10 interface [polypeptide binding]; other site 398527020376 L11 interface [polypeptide binding]; other site 398527020377 putative EF-Tu interaction site [polypeptide binding]; other site 398527020378 putative EF-G interaction site [polypeptide binding]; other site 398527020379 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 398527020380 23S rRNA interface [nucleotide binding]; other site 398527020381 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 398527020382 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 398527020383 mRNA/rRNA interface [nucleotide binding]; other site 398527020384 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 398527020385 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 398527020386 23S rRNA interface [nucleotide binding]; other site 398527020387 L7/L12 interface [polypeptide binding]; other site 398527020388 putative thiostrepton binding site; other site 398527020389 L25 interface [polypeptide binding]; other site 398527020390 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 398527020391 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 398527020392 putative homodimer interface [polypeptide binding]; other site 398527020393 KOW motif; Region: KOW; cl00354 398527020394 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 398527020395 elongation factor Tu; Reviewed; Region: PRK00049 398527020396 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398527020397 G1 box; other site 398527020398 GEF interaction site [polypeptide binding]; other site 398527020399 GTP/Mg2+ binding site [chemical binding]; other site 398527020400 Switch I region; other site 398527020401 G2 box; other site 398527020402 G3 box; other site 398527020403 Switch II region; other site 398527020404 G4 box; other site 398527020405 G5 box; other site 398527020406 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 398527020407 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 398527020408 Antibiotic Binding Site [chemical binding]; other site 398527020409 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 398527020410 active site 398527020411 catalytic triad [active] 398527020412 oxyanion hole [active] 398527020413 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 398527020414 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527020415 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 398527020416 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 398527020417 Phenylacetic acid degradation B; Region: PaaB; cl01371 398527020418 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 398527020419 Domain of unknown function DUF59; Region: DUF59; cl00941 398527020420 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 398527020421 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 398527020422 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 398527020423 FAD binding pocket [chemical binding]; other site 398527020424 FAD binding motif [chemical binding]; other site 398527020425 phosphate binding motif [ion binding]; other site 398527020426 beta-alpha-beta structure motif; other site 398527020427 NAD(p) ribose binding residues [chemical binding]; other site 398527020428 NAD binding pocket [chemical binding]; other site 398527020429 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 398527020430 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 398527020431 catalytic loop [active] 398527020432 iron binding site [ion binding]; other site 398527020433 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 398527020434 Protein of unknown function; Region: DUF3658; pfam12395 398527020435 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398527020436 Helix-turn-helix domains; Region: HTH; cl00088 398527020437 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398527020438 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527020439 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527020440 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 398527020441 putative DNA binding site [nucleotide binding]; other site 398527020442 putative Zn2+ binding site [ion binding]; other site 398527020443 AsnC family; Region: AsnC_trans_reg; pfam01037 398527020444 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 398527020445 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 398527020446 dimer interface [polypeptide binding]; other site 398527020447 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 398527020448 active site 398527020449 Fe binding site [ion binding]; other site 398527020450 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 398527020451 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 398527020452 dimer interface [polypeptide binding]; other site 398527020453 PYR/PP interface [polypeptide binding]; other site 398527020454 TPP binding site [chemical binding]; other site 398527020455 substrate binding site [chemical binding]; other site 398527020456 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 398527020457 TPP-binding site; other site 398527020458 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 398527020459 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 398527020460 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398527020461 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 398527020462 putative NAD(P) binding site [chemical binding]; other site 398527020463 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 398527020464 benzoate transport; Region: 2A0115; TIGR00895 398527020465 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527020466 putative substrate translocation pore; other site 398527020467 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398527020468 active site 398527020469 transcriptional regulator RcsB; Provisional; Region: PRK10840 398527020470 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527020471 active site 398527020472 phosphorylation site [posttranslational modification] 398527020473 intermolecular recognition site; other site 398527020474 dimerization interface [polypeptide binding]; other site 398527020475 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 398527020476 DNA binding residues [nucleotide binding] 398527020477 dimerization interface [polypeptide binding]; other site 398527020478 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398527020479 substrate binding site [chemical binding]; other site 398527020480 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 398527020481 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 398527020482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527020483 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 398527020484 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 398527020485 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 398527020486 LysE type translocator; Region: LysE; cl00565 398527020487 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398527020488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527020489 Ubiquitin-like proteins; Region: UBQ; cl00155 398527020490 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 398527020491 Protein of unknown function DUF82; Region: DUF82; pfam01927 398527020492 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 398527020493 Bacterial transcriptional regulator; Region: IclR; pfam01614 398527020494 EamA-like transporter family; Region: EamA; cl01037 398527020495 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398527020496 EamA-like transporter family; Region: EamA; cl01037 398527020497 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 398527020498 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527020499 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527020500 catalytic residue [active] 398527020501 Predicted transcriptional regulator [Transcription]; Region: COG2378 398527020502 Helix-turn-helix domains; Region: HTH; cl00088 398527020503 WYL domain; Region: WYL; cl14852 398527020504 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527020505 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 398527020506 putative C-terminal domain interface [polypeptide binding]; other site 398527020507 putative GSH binding site (G-site) [chemical binding]; other site 398527020508 putative dimer interface [polypeptide binding]; other site 398527020509 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 398527020510 dimer interface [polypeptide binding]; other site 398527020511 N-terminal domain interface [polypeptide binding]; other site 398527020512 putative substrate binding pocket (H-site) [chemical binding]; other site 398527020513 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 398527020514 Response regulator receiver domain; Region: Response_reg; pfam00072 398527020515 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527020516 active site 398527020517 phosphorylation site [posttranslational modification] 398527020518 intermolecular recognition site; other site 398527020519 dimerization interface [polypeptide binding]; other site 398527020520 Protein of unknown function (DUF429); Region: DUF429; cl12046 398527020521 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527020522 putative substrate translocation pore; other site 398527020523 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 398527020524 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 398527020525 putative Cl- selectivity filter; other site 398527020526 putative pore gating glutamate residue; other site 398527020527 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 398527020528 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 398527020529 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 398527020530 P loop; other site 398527020531 Nucleotide binding site [chemical binding]; other site 398527020532 DTAP/Switch II; other site 398527020533 Switch I; other site 398527020534 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 398527020535 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 398527020536 DTAP/Switch II; other site 398527020537 Switch I; other site 398527020538 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 398527020539 H-NS histone family; Region: Histone_HNS; pfam00816 398527020540 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527020541 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 398527020542 trimer interface [polypeptide binding]; other site 398527020543 eyelet of channel; other site 398527020544 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527020545 D-galactonate transporter; Region: 2A0114; TIGR00893 398527020546 putative substrate translocation pore; other site 398527020547 Uncharacterized conserved protein [Function unknown]; Region: COG5476 398527020548 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 398527020549 MlrC C-terminus; Region: MlrC_C; pfam07171 398527020550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398527020551 Helix-turn-helix domains; Region: HTH; cl00088 398527020552 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 398527020553 dimerization interface [polypeptide binding]; other site 398527020554 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 398527020555 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 398527020556 active site 398527020557 putative substrate binding pocket [chemical binding]; other site 398527020558 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 398527020559 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 398527020560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527020561 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398527020562 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 398527020563 homotrimer interaction site [polypeptide binding]; other site 398527020564 putative active site [active] 398527020565 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 398527020566 Helix-turn-helix domains; Region: HTH; cl00088 398527020567 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 398527020568 Catalytic site [active] 398527020569 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 398527020570 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 398527020571 active site 398527020572 Zn binding site [ion binding]; other site 398527020573 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 398527020574 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398527020575 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 398527020576 glutaminase active site [active] 398527020577 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 398527020578 dimer interface [polypeptide binding]; other site 398527020579 active site 398527020580 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 398527020581 dimer interface [polypeptide binding]; other site 398527020582 active site 398527020583 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 398527020584 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 398527020585 Substrate binding site; other site 398527020586 Mg++ binding site; other site 398527020587 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 398527020588 active site 398527020589 substrate binding site [chemical binding]; other site 398527020590 CoA binding site [chemical binding]; other site 398527020591 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 398527020592 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 398527020593 Ligand Binding Site [chemical binding]; other site 398527020594 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 398527020595 active site 398527020596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527020597 NAD(P) binding site [chemical binding]; other site 398527020598 active site 398527020599 Uncharacterized conserved protein [Function unknown]; Region: COG1565 398527020600 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 398527020601 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 398527020602 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 398527020603 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398527020604 active site 398527020605 NTP binding site [chemical binding]; other site 398527020606 metal binding triad [ion binding]; metal-binding site 398527020607 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398527020608 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398527020609 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 398527020610 putative C-terminal domain interface [polypeptide binding]; other site 398527020611 putative GSH binding site (G-site) [chemical binding]; other site 398527020612 putative dimer interface [polypeptide binding]; other site 398527020613 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 398527020614 putative substrate binding pocket (H-site) [chemical binding]; other site 398527020615 putative N-terminal domain interface [polypeptide binding]; other site 398527020616 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 398527020617 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 398527020618 putative NAD(P) binding site [chemical binding]; other site 398527020619 active site 398527020620 lytic murein transglycosylase; Provisional; Region: PRK11619 398527020621 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527020622 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527020623 catalytic residue [active] 398527020624 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 398527020625 Helix-turn-helix domains; Region: HTH; cl00088 398527020626 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 398527020627 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 398527020628 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 398527020629 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 398527020630 putative active site [active] 398527020631 Protein of unknown function (DUF969); Region: DUF969; cl01573 398527020632 Protein of unknown function (DUF979); Region: DUF979; cl01572 398527020633 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527020634 binding surface 398527020635 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398527020636 TPR motif; other site 398527020637 TPR repeat; Region: TPR_11; pfam13414 398527020638 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527020639 binding surface 398527020640 TPR motif; other site 398527020641 TPR repeat; Region: TPR_11; pfam13414 398527020642 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527020643 binding surface 398527020644 TPR motif; other site 398527020645 TPR repeat; Region: TPR_11; pfam13414 398527020646 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527020647 binding surface 398527020648 TPR repeat; Region: TPR_11; pfam13414 398527020649 TPR motif; other site 398527020650 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398527020651 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 398527020652 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 398527020653 Protein of unknown function (DUF497); Region: DUF497; cl01108 398527020654 TraB family; Region: TraB; cl12050 398527020655 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 398527020656 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527020657 Walker A/P-loop; other site 398527020658 ATP binding site [chemical binding]; other site 398527020659 Q-loop/lid; other site 398527020660 ABC transporter signature motif; other site 398527020661 Walker B; other site 398527020662 D-loop; other site 398527020663 H-loop/switch region; other site 398527020664 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527020665 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 398527020666 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 398527020667 Walker A/P-loop; other site 398527020668 ATP binding site [chemical binding]; other site 398527020669 Q-loop/lid; other site 398527020670 ABC transporter signature motif; other site 398527020671 Walker B; other site 398527020672 D-loop; other site 398527020673 H-loop/switch region; other site 398527020674 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398527020675 dipeptide transporter; Provisional; Region: PRK10913 398527020676 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527020677 dimer interface [polypeptide binding]; other site 398527020678 conserved gate region; other site 398527020679 putative PBP binding loops; other site 398527020680 ABC-ATPase subunit interface; other site 398527020681 dipeptide transporter permease DppB; Provisional; Region: PRK10914 398527020682 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 398527020683 dimer interface [polypeptide binding]; other site 398527020684 conserved gate region; other site 398527020685 putative PBP binding loops; other site 398527020686 ABC-ATPase subunit interface; other site 398527020687 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 398527020688 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 398527020689 peptide binding site [polypeptide binding]; other site 398527020690 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 398527020691 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 398527020692 peptide binding site [polypeptide binding]; other site 398527020693 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 398527020694 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 398527020695 FAD binding site [chemical binding]; other site 398527020696 Membrane protein of unknown function; Region: DUF360; cl00850 398527020697 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 398527020698 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 398527020699 oligomerization interface [polypeptide binding]; other site 398527020700 active site 398527020701 NAD+ binding site [chemical binding]; other site 398527020702 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 398527020703 active site 398527020704 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 398527020705 Helix-turn-helix domains; Region: HTH; cl00088 398527020706 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 398527020707 putative dimerization interface [polypeptide binding]; other site 398527020708 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 398527020709 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527020710 ligand binding site [chemical binding]; other site 398527020711 choline dehydrogenase; Validated; Region: PRK02106 398527020712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527020713 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527020714 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 398527020715 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398527020716 active site 398527020717 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 398527020718 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 398527020719 NAD(P) binding site [chemical binding]; other site 398527020720 catalytic residues [active] 398527020721 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 398527020722 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 398527020723 Flagellar protein FliT; Region: FliT; cl05125 398527020724 Flagellar protein FliT; Region: FliT; cl05125 398527020725 Flagellar protein FliS; Region: FliS; cl00654 398527020726 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 398527020727 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 398527020728 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 398527020729 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 398527020730 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 398527020731 FliG C-terminal domain; Region: FliG_C; pfam01706 398527020732 flagellar assembly protein H; Validated; Region: fliH; PRK05687 398527020733 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 398527020734 Flagellar assembly protein FliH; Region: FliH; pfam02108 398527020735 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 398527020736 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 398527020737 Walker A motif/ATP binding site; other site 398527020738 Walker B motif; other site 398527020739 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 398527020740 Flagellar FliJ protein; Region: FliJ; pfam02050 398527020741 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 398527020742 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 398527020743 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 398527020744 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 398527020745 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 398527020746 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 398527020747 FliP family; Region: FliP; cl00593 398527020748 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 398527020749 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 398527020750 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 398527020751 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398527020752 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 398527020753 Flagellar regulator YcgR; Region: YcgR; pfam07317 398527020754 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 398527020755 PilZ domain; Region: PilZ; cl01260 398527020756 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 398527020757 Rod binding protein; Region: Rod-binding; cl01626 398527020758 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 398527020759 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 398527020760 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 398527020761 Flagellar L-ring protein; Region: FlgH; cl00905 398527020762 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 398527020763 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 398527020764 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 398527020765 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 398527020766 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 398527020767 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 398527020768 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 398527020769 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 398527020770 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 398527020771 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 398527020772 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 398527020773 FlgD Ig-like domain; Region: FlgD_ig; cl15790 398527020774 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 398527020775 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 398527020776 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 398527020777 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 398527020778 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 398527020779 SAF-like; Region: SAF_2; pfam13144 398527020780 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398527020781 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 398527020782 FlgN protein; Region: FlgN; cl09176 398527020783 YcfA-like protein; Region: YcfA; cl00752 398527020784 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 398527020785 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 398527020786 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 398527020787 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398527020788 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398527020789 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 398527020790 DNA binding residues [nucleotide binding] 398527020791 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 398527020792 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527020793 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 398527020794 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 398527020795 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527020796 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 398527020797 FHIPEP family; Region: FHIPEP; pfam00771 398527020798 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 398527020799 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 398527020800 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 398527020801 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 398527020802 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 398527020803 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 398527020804 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527020805 active site 398527020806 phosphorylation site [posttranslational modification] 398527020807 intermolecular recognition site; other site 398527020808 dimerization interface [polypeptide binding]; other site 398527020809 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 398527020810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527020811 active site 398527020812 phosphorylation site [posttranslational modification] 398527020813 intermolecular recognition site; other site 398527020814 dimerization interface [polypeptide binding]; other site 398527020815 CheB methylesterase; Region: CheB_methylest; pfam01339 398527020816 CheD chemotactic sensory transduction; Region: CheD; cl00810 398527020817 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 398527020818 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398527020819 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527020820 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 398527020821 dimer interface [polypeptide binding]; other site 398527020822 ligand binding site [chemical binding]; other site 398527020823 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527020824 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527020825 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527020826 dimer interface [polypeptide binding]; other site 398527020827 putative CheW interface [polypeptide binding]; other site 398527020828 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 398527020829 chemotaxis protein CheA; Provisional; Region: PRK10547 398527020830 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 398527020831 putative binding surface; other site 398527020832 active site 398527020833 CheY binding; Region: CheY-binding; pfam09078 398527020834 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398527020835 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527020836 ATP binding site [chemical binding]; other site 398527020837 Mg2+ binding site [ion binding]; other site 398527020838 G-X-G motif; other site 398527020839 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 398527020840 Response regulator receiver domain; Region: Response_reg; pfam00072 398527020841 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527020842 active site 398527020843 phosphorylation site [posttranslational modification] 398527020844 intermolecular recognition site; other site 398527020845 dimerization interface [polypeptide binding]; other site 398527020846 flagellar motor protein MotB; Validated; Region: motB; PRK09041 398527020847 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398527020848 ligand binding site [chemical binding]; other site 398527020849 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 398527020850 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398527020851 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 398527020852 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 398527020853 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 398527020854 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398527020855 putative ADP-binding pocket [chemical binding]; other site 398527020856 H-NS histone family; Region: Histone_HNS; pfam00816 398527020857 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 398527020858 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 398527020859 amphipathic channel; other site 398527020860 Asn-Pro-Ala signature motifs; other site 398527020861 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 398527020862 putative hydrolase; Provisional; Region: PRK10976 398527020863 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527020864 active site 398527020865 motif I; other site 398527020866 motif II; other site 398527020867 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527020868 motif II; other site 398527020869 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 398527020870 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 398527020871 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 398527020872 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 398527020873 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 398527020874 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 398527020875 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 398527020876 active site 398527020877 catalytic tetrad [active] 398527020878 flagellin; Reviewed; Region: PRK08869 398527020879 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398527020880 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398527020881 flagellar capping protein; Validated; Region: fliD; PRK08724 398527020882 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 398527020883 Flagellar protein FliT; Region: FliT; cl05125 398527020884 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527020885 TPR motif; other site 398527020886 binding surface 398527020887 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527020888 binding surface 398527020889 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 398527020890 TPR motif; other site 398527020891 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 398527020892 TPR motif; other site 398527020893 binding surface 398527020894 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 398527020895 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 398527020896 inhibitor-cofactor binding pocket; inhibition site 398527020897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527020898 catalytic residue [active] 398527020899 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398527020900 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 398527020901 dimer interface [polypeptide binding]; other site 398527020902 active site 398527020903 CoA binding pocket [chemical binding]; other site 398527020904 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398527020905 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398527020906 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 398527020907 dimer interface [polypeptide binding]; other site 398527020908 active site 398527020909 CoA binding pocket [chemical binding]; other site 398527020910 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398527020911 classical (c) SDRs; Region: SDR_c; cd05233 398527020912 NAD(P) binding site [chemical binding]; other site 398527020913 active site 398527020914 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 398527020915 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 398527020916 putative trimer interface [polypeptide binding]; other site 398527020917 putative CoA binding site [chemical binding]; other site 398527020918 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398527020919 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 398527020920 [2Fe-2S] cluster binding site [ion binding]; other site 398527020921 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 398527020922 alpha subunit interface [polypeptide binding]; other site 398527020923 active site 398527020924 substrate binding site [chemical binding]; other site 398527020925 Fe binding site [ion binding]; other site 398527020926 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527020927 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 398527020928 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527020929 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 398527020930 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 398527020931 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 398527020932 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 398527020933 motif II; other site 398527020934 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 398527020935 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398527020936 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398527020937 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 398527020938 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 398527020939 non-specific DNA binding site [nucleotide binding]; other site 398527020940 salt bridge; other site 398527020941 sequence-specific DNA binding site [nucleotide binding]; other site 398527020942 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 398527020943 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527020944 Walker A motif; other site 398527020945 ATP binding site [chemical binding]; other site 398527020946 Walker B motif; other site 398527020947 arginine finger; other site 398527020948 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 398527020949 active site 398527020950 catalytic triad [active] 398527020951 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 398527020952 Integrase core domain; Region: rve; cl01316 398527020953 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 398527020954 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 398527020955 Walker A motif; other site 398527020956 ATP binding site [chemical binding]; other site 398527020957 Walker B motif; other site 398527020958 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 398527020959 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 398527020960 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 398527020961 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 398527020962 Integrase core domain; Region: rve; cl01316 398527020963 AAA domain; Region: AAA_22; pfam13401 398527020964 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527020965 TniQ; Region: TniQ; pfam06527 398527020966 Cytochrome c; Region: Cytochrom_C; cl11414 398527020967 Cytochrome c; Region: Cytochrom_C; cl11414 398527020968 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 398527020969 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527020970 Family description; Region: UvrD_C_2; cl15862 398527020971 putative oxidoreductase; Provisional; Region: PRK11579 398527020972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527020973 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 398527020974 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 398527020975 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 398527020976 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 398527020977 lipoyl attachment site [posttranslational modification]; other site 398527020978 glycine dehydrogenase; Provisional; Region: PRK05367 398527020979 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 398527020980 tetramer interface [polypeptide binding]; other site 398527020981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527020982 catalytic residue [active] 398527020983 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 398527020984 tetramer interface [polypeptide binding]; other site 398527020985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398527020986 catalytic residue [active] 398527020987 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 398527020988 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 398527020989 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 398527020990 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 398527020991 thiamine pyrophosphate protein; Validated; Region: PRK08199 398527020992 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398527020993 PYR/PP interface [polypeptide binding]; other site 398527020994 dimer interface [polypeptide binding]; other site 398527020995 TPP binding site [chemical binding]; other site 398527020996 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 398527020997 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 398527020998 TPP-binding site [chemical binding]; other site 398527020999 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527021000 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 398527021001 dimerization interface [polypeptide binding]; other site 398527021002 ligand binding site [chemical binding]; other site 398527021003 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 398527021004 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 398527021005 Proline dehydrogenase; Region: Pro_dh; cl03282 398527021006 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 398527021007 Glutamate binding site [chemical binding]; other site 398527021008 NAD binding site [chemical binding]; other site 398527021009 catalytic residues [active] 398527021010 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398527021011 NAD(P) binding site [chemical binding]; other site 398527021012 primosome assembly protein PriA; Validated; Region: PRK05580 398527021013 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 398527021014 ATP binding site [chemical binding]; other site 398527021015 putative Mg++ binding site [ion binding]; other site 398527021016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527021017 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 398527021018 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 398527021019 substrate binding site [chemical binding]; other site 398527021020 active site 398527021021 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 398527021022 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398527021023 substrate binding pocket [chemical binding]; other site 398527021024 membrane-bound complex binding site; other site 398527021025 hinge residues; other site 398527021026 AMP-binding domain protein; Validated; Region: PRK08315 398527021027 AMP-binding enzyme; Region: AMP-binding; cl15778 398527021028 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398527021029 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 398527021030 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 398527021031 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 398527021032 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 398527021033 alpha subunit interaction interface [polypeptide binding]; other site 398527021034 Walker A motif; other site 398527021035 ATP binding site [chemical binding]; other site 398527021036 Walker B motif; other site 398527021037 inhibitor binding site; inhibition site 398527021038 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398527021039 ATP synthase; Region: ATP-synt; cl00365 398527021040 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 398527021041 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 398527021042 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 398527021043 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 398527021044 beta subunit interaction interface [polypeptide binding]; other site 398527021045 Walker A motif; other site 398527021046 ATP binding site [chemical binding]; other site 398527021047 Walker B motif; other site 398527021048 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398527021049 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 398527021050 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 398527021051 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 398527021052 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 398527021053 ATP synthase subunit C; Region: ATP-synt_C; cl00466 398527021054 ATP synthase A chain; Region: ATP-synt_A; cl00413 398527021055 ATP synthase I chain; Region: ATP_synt_I; cl09170 398527021056 ParB-like partition proteins; Region: parB_part; TIGR00180 398527021057 ParB-like nuclease domain; Region: ParBc; cl02129 398527021058 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398527021059 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 398527021060 P-loop; other site 398527021061 Magnesium ion binding site [ion binding]; other site 398527021062 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 398527021063 Magnesium ion binding site [ion binding]; other site 398527021064 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527021065 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 398527021066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527021067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527021068 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 398527021069 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527021070 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527021071 Walker A/P-loop; other site 398527021072 ATP binding site [chemical binding]; other site 398527021073 Q-loop/lid; other site 398527021074 ABC transporter signature motif; other site 398527021075 Walker B; other site 398527021076 D-loop; other site 398527021077 H-loop/switch region; other site 398527021078 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527021079 TM-ABC transporter signature motif; other site 398527021080 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527021081 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527021082 Walker A/P-loop; other site 398527021083 ATP binding site [chemical binding]; other site 398527021084 Q-loop/lid; other site 398527021085 ABC transporter signature motif; other site 398527021086 Walker B; other site 398527021087 D-loop; other site 398527021088 H-loop/switch region; other site 398527021089 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527021090 TM-ABC transporter signature motif; other site 398527021091 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527021092 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 398527021093 putative ligand binding site [chemical binding]; other site 398527021094 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398527021095 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 398527021096 putative ligand binding site [chemical binding]; other site 398527021097 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 398527021098 TM-ABC transporter signature motif; other site 398527021099 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 398527021100 TM-ABC transporter signature motif; other site 398527021101 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398527021102 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 398527021103 putative ligand binding site [chemical binding]; other site 398527021104 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398527021105 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 398527021106 Walker A/P-loop; other site 398527021107 ATP binding site [chemical binding]; other site 398527021108 Q-loop/lid; other site 398527021109 ABC transporter signature motif; other site 398527021110 Walker B; other site 398527021111 D-loop; other site 398527021112 H-loop/switch region; other site 398527021113 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398527021114 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 398527021115 Walker A/P-loop; other site 398527021116 ATP binding site [chemical binding]; other site 398527021117 Q-loop/lid; other site 398527021118 ABC transporter signature motif; other site 398527021119 Walker B; other site 398527021120 D-loop; other site 398527021121 H-loop/switch region; other site 398527021122 choline dehydrogenase; Validated; Region: PRK02106 398527021123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527021124 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398527021125 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398527021126 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527021127 tetrameric interface [polypeptide binding]; other site 398527021128 NAD binding site [chemical binding]; other site 398527021129 catalytic residues [active] 398527021130 Helix-turn-helix domains; Region: HTH; cl00088 398527021131 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 398527021132 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 398527021133 dimerization interface [polypeptide binding]; other site 398527021134 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 398527021135 putative active site [active] 398527021136 putative metal binding residues [ion binding]; other site 398527021137 signature motif; other site 398527021138 putative triphosphate binding site [ion binding]; other site 398527021139 dimer interface [polypeptide binding]; other site 398527021140 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527021141 Helix-turn-helix domains; Region: HTH; cl00088 398527021142 AsnC family; Region: AsnC_trans_reg; pfam01037 398527021143 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 398527021144 cofactor binding site; other site 398527021145 metal binding site [ion binding]; metal-binding site 398527021146 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 398527021147 aromatic arch; other site 398527021148 DCoH dimer interaction site [polypeptide binding]; other site 398527021149 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 398527021150 DCoH tetramer interaction site [polypeptide binding]; other site 398527021151 substrate binding site [chemical binding]; other site 398527021152 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 398527021153 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 398527021154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527021155 active site 398527021156 phosphorylation site [posttranslational modification] 398527021157 intermolecular recognition site; other site 398527021158 dimerization interface [polypeptide binding]; other site 398527021159 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 398527021160 DNA binding site [nucleotide binding] 398527021161 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398527021162 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398527021163 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 398527021164 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 398527021165 dimer interface [polypeptide binding]; other site 398527021166 phosphorylation site [posttranslational modification] 398527021167 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527021168 ATP binding site [chemical binding]; other site 398527021169 Mg2+ binding site [ion binding]; other site 398527021170 G-X-G motif; other site 398527021171 SET domain; Region: SET; cl02566 398527021172 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 398527021173 active site 398527021174 FMN binding site [chemical binding]; other site 398527021175 substrate binding site [chemical binding]; other site 398527021176 homotetramer interface [polypeptide binding]; other site 398527021177 catalytic residue [active] 398527021178 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 398527021179 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 398527021180 catalytic triad [active] 398527021181 Helix-turn-helix domains; Region: HTH; cl00088 398527021182 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 398527021183 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 398527021184 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 398527021185 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 398527021186 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527021187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527021188 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 398527021189 IHF dimer interface [polypeptide binding]; other site 398527021190 IHF - DNA interface [nucleotide binding]; other site 398527021191 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398527021192 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 398527021193 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 398527021194 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 398527021195 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398527021196 catalytic residue [active] 398527021197 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 398527021198 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398527021199 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398527021200 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398527021201 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 398527021202 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398527021203 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398527021204 type II secretion system protein E; Region: type_II_gspE; TIGR02533 398527021205 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 398527021206 Walker A motif; other site 398527021207 ATP binding site [chemical binding]; other site 398527021208 Walker B motif; other site 398527021209 type II secretion system protein F; Region: GspF; TIGR02120 398527021210 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 398527021211 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 398527021212 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 398527021213 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 398527021214 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 398527021215 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 398527021216 Type II transport protein GspH; Region: GspH; pfam12019 398527021217 type II secretion system protein I; Region: gspI; TIGR01707 398527021218 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 398527021219 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 398527021220 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 398527021221 GspL periplasmic domain; Region: GspL_C; cl14909 398527021222 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 398527021223 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 398527021224 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398527021225 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398527021226 Helix-turn-helix domains; Region: HTH; cl00088 398527021227 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398527021228 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398527021229 putative substrate translocation pore; other site 398527021230 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14959 398527021231 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 398527021232 AlkA N-terminal domain; Region: AlkA_N; cl05528 398527021233 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 398527021234 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398527021235 minor groove reading motif; other site 398527021236 helix-hairpin-helix signature motif; other site 398527021237 substrate binding pocket [chemical binding]; other site 398527021238 active site 398527021239 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 398527021240 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 398527021241 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398527021242 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 398527021243 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 398527021244 DNA binding site [nucleotide binding] 398527021245 active site 398527021246 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 398527021247 dimer interface [polypeptide binding]; other site 398527021248 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398527021249 metal binding site [ion binding]; metal-binding site 398527021250 YaeQ protein; Region: YaeQ; cl01913 398527021251 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398527021252 Helix-turn-helix domains; Region: HTH; cl00088 398527021253 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 398527021254 putative dimerization interface [polypeptide binding]; other site 398527021255 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398527021256 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398527021257 NAD(P) binding site [chemical binding]; other site 398527021258 catalytic residues [active] 398527021259 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 398527021260 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 398527021261 ligand binding site [chemical binding]; other site 398527021262 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 398527021263 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 398527021264 Walker A/P-loop; other site 398527021265 ATP binding site [chemical binding]; other site 398527021266 Q-loop/lid; other site 398527021267 ABC transporter signature motif; other site 398527021268 Walker B; other site 398527021269 D-loop; other site 398527021270 H-loop/switch region; other site 398527021271 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 398527021272 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 398527021273 TM-ABC transporter signature motif; other site 398527021274 Dehydratase family; Region: ILVD_EDD; cl00340 398527021275 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 398527021276 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 398527021277 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 398527021278 HIT family signature motif; other site 398527021279 catalytic residue [active] 398527021280 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398527021281 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398527021282 conserved cys residue [active] 398527021283 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 398527021284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398527021285 NAD(P) binding site [chemical binding]; other site 398527021286 active site 398527021287 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398527021288 Helix-turn-helix domains; Region: HTH; cl00088 398527021289 AsnC family; Region: AsnC_trans_reg; pfam01037 398527021290 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 398527021291 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 398527021292 dimer interface [polypeptide binding]; other site 398527021293 TPP-binding site [chemical binding]; other site 398527021294 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 398527021295 Response regulator receiver domain; Region: Response_reg; pfam00072 398527021296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527021297 active site 398527021298 phosphorylation site [posttranslational modification] 398527021299 intermolecular recognition site; other site 398527021300 dimerization interface [polypeptide binding]; other site 398527021301 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398527021302 metal binding site [ion binding]; metal-binding site 398527021303 active site 398527021304 I-site; other site 398527021305 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 398527021306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527021307 active site 398527021308 phosphorylation site [posttranslational modification] 398527021309 intermolecular recognition site; other site 398527021310 dimerization interface [polypeptide binding]; other site 398527021311 CheB methylesterase; Region: CheB_methylest; pfam01339 398527021312 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 398527021313 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 398527021314 putative binding surface; other site 398527021315 active site 398527021316 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 398527021317 ATP binding site [chemical binding]; other site 398527021318 Mg2+ binding site [ion binding]; other site 398527021319 G-X-G motif; other site 398527021320 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 398527021321 Response regulator receiver domain; Region: Response_reg; pfam00072 398527021322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 398527021323 active site 398527021324 phosphorylation site [posttranslational modification] 398527021325 intermolecular recognition site; other site 398527021326 dimerization interface [polypeptide binding]; other site 398527021327 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 398527021328 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 398527021329 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 398527021330 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 398527021331 binding surface 398527021332 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398527021333 TPR motif; other site 398527021334 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 398527021335 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398527021336 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 398527021337 dimerization interface [polypeptide binding]; other site 398527021338 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398527021339 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398527021340 dimer interface [polypeptide binding]; other site 398527021341 putative CheW interface [polypeptide binding]; other site 398527021342 integrase; Provisional; Region: PRK09692 398527021343 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 398527021344 active site 398527021345 Int/Topo IB signature motif; other site 398527021346 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 398527021347 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 398527021348 trmE is a tRNA modification GTPase; Region: trmE; cd04164 398527021349 G1 box; other site 398527021350 GTP/Mg2+ binding site [chemical binding]; other site 398527021351 Switch I region; other site 398527021352 G2 box; other site 398527021353 Switch II region; other site 398527021354 G3 box; other site 398527021355 G4 box; other site 398527021356 G5 box; other site 398527021357 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 398527021358 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 398527021359 non-specific DNA binding site [nucleotide binding]; other site 398527021360 salt bridge; other site 398527021361 sequence-specific DNA binding site [nucleotide binding]; other site 398527021362 membrane protein insertase; Provisional; Region: PRK01318 398527021363 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 398527021364 Haemolytic domain; Region: Haemolytic; cl00506 398527021365 Ribonuclease P; Region: Ribonuclease_P; cl00457 398527021366 Ribosomal protein L34; Region: Ribosomal_L34; cl00370