-- dump date 20120504_163813 -- class Genbank::misc_feature -- table misc_feature_note -- id note 401053000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 401053000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 401053000003 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 401053000004 Walker A motif; other site 401053000005 ATP binding site [chemical binding]; other site 401053000006 Walker B motif; other site 401053000007 arginine finger; other site 401053000008 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 401053000009 DnaA box-binding interface [nucleotide binding]; other site 401053000010 PEP-CTERM motif; Region: VPEP; cl15443 401053000011 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 401053000012 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053000013 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 401053000014 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 401053000015 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053000016 Walker A/P-loop; other site 401053000017 ATP binding site [chemical binding]; other site 401053000018 Q-loop/lid; other site 401053000019 ABC transporter signature motif; other site 401053000020 Walker B; other site 401053000021 D-loop; other site 401053000022 H-loop/switch region; other site 401053000023 Smr domain; Region: Smr; cl02619 401053000024 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 401053000025 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 401053000026 active site 401053000027 catalytic tetrad [active] 401053000028 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; cd00384 401053000029 dimer interface [polypeptide binding]; other site 401053000030 active site 401053000031 Schiff base residues; other site 401053000032 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 401053000033 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 401053000034 putative active site [active] 401053000035 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 401053000036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000037 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053000038 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 401053000039 Helix-turn-helix domains; Region: HTH; cl00088 401053000040 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 401053000041 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053000042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000043 Cupin domain; Region: Cupin_2; cl09118 401053000044 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 401053000045 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 401053000046 NADP binding site [chemical binding]; other site 401053000047 Helix-turn-helix domains; Region: HTH; cl00088 401053000048 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053000049 Coenzyme A binding pocket [chemical binding]; other site 401053000050 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 401053000051 Protein of unknown function (DUF692); Region: DUF692; cl01263 401053000052 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 401053000053 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 401053000054 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 401053000055 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053000056 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 401053000057 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 401053000058 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 401053000059 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 401053000060 active site 401053000061 catalytic tetrad [active] 401053000062 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 401053000063 Flavin Reductases; Region: FlaRed; cl00801 401053000064 PEP-CTERM motif; Region: VPEP; cl15443 401053000065 NeuB family; Region: NeuB; cl00496 401053000066 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 401053000067 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 401053000068 metal-binding site [ion binding] 401053000069 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 401053000070 Cupin domain; Region: Cupin_2; cl09118 401053000071 Cupin domain; Region: Cupin_2; cl09118 401053000072 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 401053000073 catalytic residues [active] 401053000074 dimer interface [polypeptide binding]; other site 401053000075 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 401053000076 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 401053000077 dimer interface [polypeptide binding]; other site 401053000078 active site 401053000079 heme binding site [chemical binding]; other site 401053000080 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 401053000081 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 401053000082 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 401053000083 active site 401053000084 catalytic tetrad [active] 401053000085 Domain of unknown function (DUF4267); Region: DUF4267; pfam14087 401053000086 Helix-turn-helix domains; Region: HTH; cl00088 401053000087 WHG domain; Region: WHG; pfam13305 401053000088 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053000089 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053000090 FtsX-like permease family; Region: FtsX; cl15850 401053000091 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053000092 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053000093 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053000094 FtsX-like permease family; Region: FtsX; cl15850 401053000095 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053000096 FtsX-like permease family; Region: FtsX; cl15850 401053000097 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 401053000098 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; cl10015 401053000099 homotrimer interaction site [polypeptide binding]; other site 401053000100 putative active site [active] 401053000101 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 401053000102 Helix-turn-helix domains; Region: HTH; cl00088 401053000103 oxidoreductase; Provisional; Region: PRK06196 401053000104 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 401053000105 putative NAD(P) binding site [chemical binding]; other site 401053000106 active site 401053000107 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; cd01494 401053000108 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 401053000109 catalytic residue [active] 401053000110 Peptide N-acetyl-beta-D-glucosaminyl asparaginase amidase A; Region: PNGaseA; pfam12222 401053000111 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 401053000112 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 401053000113 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 401053000114 active site 401053000115 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 401053000116 Helix-turn-helix domains; Region: HTH; cl00088 401053000117 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 401053000118 putative dimerization interface [polypeptide binding]; other site 401053000119 putative substrate binding pocket [chemical binding]; other site 401053000120 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 401053000121 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053000122 Helix-turn-helix domains; Region: HTH; cl00088 401053000123 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053000124 Cysteine dioxygenase type I; Region: CDO_I; cl15835 401053000125 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 401053000126 active site residue [active] 401053000127 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 401053000128 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053000129 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 401053000130 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053000131 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 401053000132 active site 401053000133 metal binding site [ion binding]; metal-binding site 401053000134 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 401053000135 dimer interface [polypeptide binding]; other site 401053000136 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053000137 ligand binding site [chemical binding]; other site 401053000138 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 401053000139 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000140 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 401053000141 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 401053000142 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 401053000143 E3 interaction surface; other site 401053000144 lipoyl attachment site [posttranslational modification]; other site 401053000145 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 401053000146 E3 interaction surface; other site 401053000147 lipoyl attachment site [posttranslational modification]; other site 401053000148 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 401053000149 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 401053000150 E3 interaction surface; other site 401053000151 lipoyl attachment site [posttranslational modification]; other site 401053000152 e3 binding domain; Region: E3_binding; pfam02817 401053000153 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 401053000154 Uncharacterized conserved protein [Function unknown]; Region: COG1751 401053000155 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 401053000156 ATP-grasp domain; Region: ATP-grasp_4; cl03087 401053000157 AIR carboxylase; Region: AIRC; cl00310 401053000158 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 401053000159 Helix-turn-helix domains; Region: HTH; cl00088 401053000160 Integrase core domain; Region: rve; cl01316 401053000161 Phage-related protein [Function unknown]; Region: COG4695; cl01923 401053000162 Phage portal protein; Region: Phage_portal; pfam04860 401053000163 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 401053000164 HipA-like N-terminal domain; Region: HipA_N; pfam07805 401053000165 large terminase protein; Provisional; Region: 17; PHA02533 401053000166 Terminase-like family; Region: Terminase_6; pfam03237 401053000167 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 401053000168 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 401053000169 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053000170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000171 Protein of unknown function (DUF497); Region: DUF497; cl01108 401053000172 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 401053000173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000174 NAD(P) binding site [chemical binding]; other site 401053000175 active site 401053000176 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 401053000177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000178 NAD(P) binding site [chemical binding]; other site 401053000179 active site 401053000180 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 401053000181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000182 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053000183 classical (c) SDRs; Region: SDR_c; cd05233 401053000184 NAD(P) binding site [chemical binding]; other site 401053000185 active site 401053000186 Helix-turn-helix domains; Region: HTH; cl00088 401053000187 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000188 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053000189 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 401053000190 active site 401053000191 phosphorylation site [posttranslational modification] 401053000192 intermolecular recognition site; other site 401053000193 dimerization interface [polypeptide binding]; other site 401053000194 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 401053000195 DNA binding residues [nucleotide binding] 401053000196 dimerization interface [polypeptide binding]; other site 401053000197 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 401053000198 Two component regulator propeller; Region: Reg_prop; pfam07494 401053000199 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 401053000200 Histidine kinase; Region: HisKA_3; pfam07730 401053000201 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 401053000202 ATP binding site [chemical binding]; other site 401053000203 Mg2+ binding site [ion binding]; other site 401053000204 G-X-G motif; other site 401053000205 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 401053000206 RHS Repeat; Region: RHS_repeat; cl11982 401053000207 RHS Repeat; Region: RHS_repeat; cl11982 401053000208 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 401053000209 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 401053000210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000211 multiple promoter invertase; Provisional; Region: mpi; PRK13413 401053000212 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 401053000213 catalytic residues [active] 401053000214 catalytic nucleophile [active] 401053000215 Presynaptic Site I dimer interface [polypeptide binding]; other site 401053000216 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 401053000217 Synaptic Flat tetramer interface [polypeptide binding]; other site 401053000218 Synaptic Site I dimer interface [polypeptide binding]; other site 401053000219 DNA binding site [nucleotide binding] 401053000220 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 401053000221 DNA-binding interface [nucleotide binding]; DNA binding site 401053000222 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 401053000223 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 401053000224 non-specific DNA binding site [nucleotide binding]; other site 401053000225 salt bridge; other site 401053000226 sequence-specific DNA binding site [nucleotide binding]; other site 401053000227 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 401053000228 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 401053000229 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 401053000230 Int/Topo IB signature motif; other site 401053000231 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 401053000232 Helix-turn-helix domains; Region: HTH; cl00088 401053000233 Rrf2 family protein; Region: rrf2_super; TIGR00738 401053000234 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 401053000235 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 401053000236 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 401053000237 catalytic residue [active] 401053000238 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 401053000239 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 401053000240 trimerization site [polypeptide binding]; other site 401053000241 active site 401053000242 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 401053000243 Plant phosphoribosyltransferase C-terminal; Region: PRT_C; pfam08372 401053000244 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053000245 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053000246 FtsX-like permease family; Region: FtsX; cl15850 401053000247 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053000248 FtsX-like permease family; Region: FtsX; cl15850 401053000249 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 401053000250 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053000251 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 401053000252 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 401053000253 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 401053000254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053000255 metal binding site [ion binding]; metal-binding site 401053000256 active site 401053000257 I-site; other site 401053000258 co-chaperone HscB; Provisional; Region: hscB; PRK03578 401053000259 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; cl02542 401053000260 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 401053000261 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053000262 chaperone protein HscA; Provisional; Region: hscA; PRK05183 401053000263 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 401053000264 active site 401053000265 HslU subunit interaction site [polypeptide binding]; other site 401053000266 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 401053000267 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 401053000268 Walker A motif; other site 401053000269 ATP binding site [chemical binding]; other site 401053000270 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053000271 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 401053000272 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 401053000273 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 401053000274 transaldolase-like protein; Provisional; Region: PTZ00411 401053000275 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 401053000276 active site 401053000277 dimer interface [polypeptide binding]; other site 401053000278 catalytic residue [active] 401053000279 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 401053000280 Interdomain contacts; other site 401053000281 Cytokine receptor motif; other site 401053000282 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 401053000283 non-specific DNA binding site [nucleotide binding]; other site 401053000284 salt bridge; other site 401053000285 sequence-specific DNA binding site [nucleotide binding]; other site 401053000286 Cupin domain; Region: Cupin_2; cl09118 401053000287 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 401053000288 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 401053000289 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 401053000290 putative substrate translocation pore; other site 401053000291 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 401053000292 OsmC-like protein; Region: OsmC; cl00767 401053000293 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053000294 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 401053000295 PA/protease or protease-like domain interface [polypeptide binding]; other site 401053000296 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053000297 metal binding site [ion binding]; metal-binding site 401053000298 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 401053000299 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 401053000300 minor groove reading motif; other site 401053000301 helix-hairpin-helix signature motif; other site 401053000302 substrate binding pocket [chemical binding]; other site 401053000303 active site 401053000304 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 401053000305 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 401053000306 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 401053000307 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 401053000308 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 401053000309 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 401053000310 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 401053000311 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 401053000312 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 401053000313 minor groove reading motif; other site 401053000314 helix-hairpin-helix signature motif; other site 401053000315 substrate binding pocket [chemical binding]; other site 401053000316 active site 401053000317 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 401053000318 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 401053000319 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 401053000320 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053000321 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 401053000322 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 401053000323 DNA binding residues [nucleotide binding] 401053000324 RES domain; Region: RES; cl02411 401053000325 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 401053000326 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 401053000327 HI0933-like protein; Region: HI0933_like; pfam03486 401053000328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000329 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 401053000330 Phage Tail Collar Domain; Region: Collar; pfam07484 401053000331 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 401053000332 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 401053000333 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 401053000334 NHL repeat; Region: NHL; pfam01436 401053000335 NHL repeat; Region: NHL; pfam01436 401053000336 NHL repeat; Region: NHL; pfam01436 401053000337 NHL repeat; Region: NHL; pfam01436 401053000338 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 401053000339 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 401053000340 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 401053000341 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 401053000342 ethanolamine permease; Region: 2A0305; TIGR00908 401053000343 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000344 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; cl00284 401053000345 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 401053000346 Phosphoesterase family; Region: Phosphoesterase; cl15450 401053000347 Domain of unknown function (DUF756); Region: DUF756; pfam05506 401053000348 Domain of unknown function (DUF756); Region: DUF756; pfam05506 401053000349 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 401053000350 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 401053000351 putative substrate translocation pore; other site 401053000352 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 401053000353 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 401053000354 putative molybdopterin cofactor binding site [chemical binding]; other site 401053000355 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 401053000356 putative molybdopterin cofactor binding site; other site 401053000357 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 401053000358 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 401053000359 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 401053000360 active site 401053000361 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000362 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053000363 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 401053000364 PA/protease or protease-like domain interface [polypeptide binding]; other site 401053000365 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 401053000366 metal binding site [ion binding]; metal-binding site 401053000367 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000368 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; cl00284 401053000369 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 401053000370 dimerization interface [polypeptide binding]; other site 401053000371 putative DNA binding site [nucleotide binding]; other site 401053000372 putative Zn2+ binding site [ion binding]; other site 401053000373 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 401053000374 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053000375 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 401053000376 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 401053000377 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 401053000378 active site 401053000379 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 401053000380 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_HprK; cl00270 401053000381 active site 401053000382 metal-binding site [ion binding] 401053000383 nucleotide-binding site [chemical binding]; other site 401053000384 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 401053000385 active site 401053000386 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 401053000387 Ligand Binding Site [chemical binding]; other site 401053000388 Molecular Tunnel; other site 401053000389 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 401053000390 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 401053000391 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 401053000392 Right handed beta helix region; Region: Beta_helix; pfam13229 401053000393 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053000394 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053000395 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 401053000396 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 401053000397 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 401053000398 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 401053000399 Two component regulator propeller; Region: Reg_prop; pfam07494 401053000400 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 401053000401 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053000402 metal binding site [ion binding]; metal-binding site 401053000403 active site 401053000404 I-site; other site 401053000405 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000406 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; cl00284 401053000407 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 401053000408 DNA-binding site [nucleotide binding]; DNA binding site 401053000409 RNA-binding motif; other site 401053000410 Cadherin repeat-like domain; Region: CA_like; cl15786 401053000411 PAS domain; Region: PAS_9; pfam13426 401053000412 PAS domain S-box; Region: sensory_box; TIGR00229 401053000413 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 401053000414 putative active site [active] 401053000415 heme pocket [chemical binding]; other site 401053000416 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053000417 metal binding site [ion binding]; metal-binding site 401053000418 active site 401053000419 I-site; other site 401053000420 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 401053000421 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000422 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; cl00284 401053000423 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000424 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 401053000425 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 401053000426 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 401053000427 active site 401053000428 oligomerization interface [polypeptide binding]; other site 401053000429 metal binding site [ion binding]; metal-binding site 401053000430 pantoate--beta-alanine ligase; Region: panC; TIGR00018 401053000431 Pantoate-beta-alanine ligase; Region: PanC; cd00560 401053000432 active site 401053000433 ATP-binding site [chemical binding]; other site 401053000434 pantoate-binding site; other site 401053000435 HXXH motif; other site 401053000436 Flavoprotein; Region: Flavoprotein; cl08021 401053000437 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 401053000438 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 401053000439 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 401053000440 tetramerization interface [polypeptide binding]; other site 401053000441 active site 401053000442 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000443 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; cl00284 401053000444 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000445 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 401053000446 metabolite-proton symporter; Region: 2A0106; TIGR00883 401053000447 putative substrate translocation pore; other site 401053000448 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 401053000449 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000450 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 401053000451 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 401053000452 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 401053000453 structural tetrad; other site 401053000454 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 401053000455 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 401053000456 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 401053000457 Trp docking motif [polypeptide binding]; other site 401053000458 active site 401053000459 Cytochrome c; Region: Cytochrom_C; cl11414 401053000460 Cytochrome c; Region: Cytochrom_C; cl11414 401053000461 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 401053000462 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053000463 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053000464 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053000465 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 401053000466 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 401053000467 DNA interaction; other site 401053000468 Metal-binding active site; metal-binding site 401053000469 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 401053000470 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053000471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000472 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 401053000473 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 401053000474 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 401053000475 putative active site [active] 401053000476 catalytic site [active] 401053000477 putative metal binding site [ion binding]; other site 401053000478 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 401053000479 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053000480 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 401053000481 DNA binding residues [nucleotide binding] 401053000482 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 401053000483 dimer interface [polypeptide binding]; other site 401053000484 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 401053000485 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 401053000486 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 401053000487 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 401053000488 active site 401053000489 putative substrate binding pocket [chemical binding]; other site 401053000490 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 401053000491 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 401053000492 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 401053000493 Members of the SGNH-hydrolase superfamily, 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_like_4; cd04501 401053000494 active site 401053000495 catalytic triad [active] 401053000496 oxyanion hole [active] 401053000497 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 401053000498 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 401053000499 DNA interaction; other site 401053000500 Metal-binding active site; metal-binding site 401053000501 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 401053000502 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 401053000503 metal binding site [ion binding]; metal-binding site 401053000504 dimer interface [polypeptide binding]; other site 401053000505 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 401053000506 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 401053000507 Dimer interface [polypeptide binding]; other site 401053000508 anticodon binding site; other site 401053000509 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 401053000510 homodimer interface [polypeptide binding]; other site 401053000511 motif 1; other site 401053000512 motif 2; other site 401053000513 active site 401053000514 motif 3; other site 401053000515 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 401053000516 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 401053000517 S-adenosylmethionine binding site [chemical binding]; other site 401053000518 DoxX; Region: DoxX; cl00976 401053000519 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 401053000520 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 401053000521 putative active site [active] 401053000522 DinB superfamily; Region: DinB_2; pfam12867 401053000523 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 401053000524 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 401053000525 Haem-binding domain; Region: Haem_bd; pfam14376 401053000526 GTP-binding protein YchF; Reviewed; Region: PRK09601 401053000527 YchF GTPase; Region: YchF; cd01900 401053000528 G1 box; other site 401053000529 GTP/Mg2+ binding site [chemical binding]; other site 401053000530 Switch I region; other site 401053000531 G2 box; other site 401053000532 Switch II region; other site 401053000533 G3 box; other site 401053000534 G4 box; other site 401053000535 G5 box; other site 401053000536 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 401053000537 LysE type translocator; Region: LysE; cl00565 401053000538 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 401053000539 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 401053000540 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 401053000541 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 401053000542 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 401053000543 ATP-grasp domain; Region: ATP-grasp_4; cl03087 401053000544 Cupin domain; Region: Cupin_2; cl09118 401053000545 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 401053000546 active site 401053000547 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 401053000548 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 401053000549 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 401053000550 active site 401053000551 phosphorylation site [posttranslational modification] 401053000552 intermolecular recognition site; other site 401053000553 dimerization interface [polypeptide binding]; other site 401053000554 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 401053000555 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 401053000556 nucleotide binding pocket [chemical binding]; other site 401053000557 K-X-D-G motif; other site 401053000558 catalytic site [active] 401053000559 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 401053000560 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 401053000561 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 401053000562 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 401053000563 Dimer interface [polypeptide binding]; other site 401053000564 BRCT sequence motif; other site 401053000565 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 401053000566 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 401053000567 TIGR03118 family protein; Region: PEPCTERM_chp_1 401053000568 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 401053000569 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 401053000570 MPT binding site; other site 401053000571 trimer interface [polypeptide binding]; other site 401053000572 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053000573 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053000574 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 401053000575 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 401053000576 dihydroorotase; Validated; Region: pyrC; PRK09357 401053000577 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 401053000578 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 401053000579 active site 401053000580 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 401053000581 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 401053000582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000583 Domain of unknown function (DUF303); Region: DUF303; pfam03629 401053000584 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 401053000585 active site 401053000586 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053000587 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 401053000588 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 401053000589 DNA binding residues [nucleotide binding] 401053000590 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 401053000591 dihydropteroate synthase; Region: DHPS; TIGR01496 401053000592 substrate binding pocket [chemical binding]; other site 401053000593 dimer interface [polypeptide binding]; other site 401053000594 inhibitor binding site; inhibition site 401053000595 RmuC family; Region: RmuC; pfam02646 401053000596 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053000597 metal binding site [ion binding]; metal-binding site 401053000598 active site 401053000599 I-site; other site 401053000600 Phosphopantetheine attachment site; Region: PP-binding; cl09936 401053000601 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 401053000602 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 401053000603 dimer interface [polypeptide binding]; other site 401053000604 active site 401053000605 multidrug efflux protein; Reviewed; Region: PRK01766 401053000606 MatE; Region: MatE; cl10513 401053000607 MatE; Region: MatE; cl10513 401053000608 Cytochrome c; Region: Cytochrom_C; cl11414 401053000609 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 401053000610 RES domain; Region: RES; cl02411 401053000611 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 401053000612 Bacteroides conjugative transposon TraM protein; Region: Bac_Flav_CT_M; TIGR03779 401053000613 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000614 CHASE3 domain; Region: CHASE3; cl05000 401053000615 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 401053000616 dimer interface [polypeptide binding]; other site 401053000617 phosphorylation site [posttranslational modification] 401053000618 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 401053000619 ATP binding site [chemical binding]; other site 401053000620 Mg2+ binding site [ion binding]; other site 401053000621 G-X-G motif; other site 401053000622 Response regulator receiver domain; Region: Response_reg; pfam00072 401053000623 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 401053000624 active site 401053000625 phosphorylation site [posttranslational modification] 401053000626 intermolecular recognition site; other site 401053000627 dimerization interface [polypeptide binding]; other site 401053000628 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 401053000629 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 401053000630 active site 401053000631 phosphorylation site [posttranslational modification] 401053000632 intermolecular recognition site; other site 401053000633 dimerization interface [polypeptide binding]; other site 401053000634 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 401053000635 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 401053000636 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 401053000637 dimer interface [polypeptide binding]; other site 401053000638 phosphorylation site [posttranslational modification] 401053000639 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 401053000640 ATP binding site [chemical binding]; other site 401053000641 Mg2+ binding site [ion binding]; other site 401053000642 G-X-G motif; other site 401053000643 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 401053000644 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 401053000645 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053000646 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 401053000647 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 401053000648 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 401053000649 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 401053000650 Uncharacterized conserved protein [Function unknown]; Region: COG3391 401053000651 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 401053000652 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 401053000653 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 401053000654 PAS domain S-box; Region: sensory_box; TIGR00229 401053000655 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 401053000656 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053000657 metal binding site [ion binding]; metal-binding site 401053000658 active site 401053000659 I-site; other site 401053000660 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 401053000661 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 401053000662 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 401053000663 Protein of unknown function DUF72; Region: DUF72; cl00777 401053000664 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 401053000665 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 401053000666 CHASE3 domain; Region: CHASE3; cl05000 401053000667 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053000668 metal binding site [ion binding]; metal-binding site 401053000669 active site 401053000670 I-site; other site 401053000671 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 401053000672 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 401053000673 putative substrate translocation pore; other site 401053000674 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 401053000675 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 401053000676 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 401053000677 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 401053000678 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 401053000679 nucleotide binding site/active site [active] 401053000680 HIT family signature motif; other site 401053000681 catalytic residue [active] 401053000682 Peptidase family M48; Region: Peptidase_M48; cl12018 401053000683 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 401053000684 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 401053000685 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 401053000686 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 401053000687 Ferritin-like domain; Region: Ferritin; pfam00210 401053000688 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 401053000689 dinuclear metal binding motif [ion binding]; other site 401053000690 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 401053000691 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 401053000692 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 401053000693 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 401053000694 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 401053000695 dimerization interface [polypeptide binding]; other site 401053000696 putative DNA binding site [nucleotide binding]; other site 401053000697 putative Zn2+ binding site [ion binding]; other site 401053000698 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_1; cd08894 401053000699 putative hydrophobic ligand binding site [chemical binding]; other site 401053000700 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 401053000701 hydrophobic ligand binding site; other site 401053000702 Response regulator receiver domain; Region: Response_reg; pfam00072 401053000703 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 401053000704 active site 401053000705 phosphorylation site [posttranslational modification] 401053000706 intermolecular recognition site; other site 401053000707 dimerization interface [polypeptide binding]; other site 401053000708 elongation factor P; Validated; Region: PRK00529 401053000709 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 401053000710 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 401053000711 RNA binding site [nucleotide binding]; other site 401053000712 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 401053000713 RNA binding site [nucleotide binding]; other site 401053000714 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 401053000715 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 401053000716 PA14 domain; Region: PA14; cl08459 401053000717 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 401053000718 Fibronectin type III-like domain; Region: Fn3-like; cl15273 401053000719 Domain of unknown function (DUF336); Region: DUF336; cl01249 401053000720 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 401053000721 A functionally uncharacterized subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the chitobiase of Serratia marcescens, a beta-N-1,4-acetylhexosaminidase that hydrolyzes the beta-1,4-glycosidic linkages in...; Region: GH20_chitobiase-like_1; cd06570 401053000722 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 401053000723 active site 401053000724 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000725 NAD(P) binding site [chemical binding]; other site 401053000726 active site 401053000727 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 401053000728 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 401053000729 dimer interface [polypeptide binding]; other site 401053000730 anticodon binding site; other site 401053000731 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 401053000732 homodimer interface [polypeptide binding]; other site 401053000733 motif 1; other site 401053000734 active site 401053000735 motif 2; other site 401053000736 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 401053000737 motif 3; other site 401053000738 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 401053000739 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 401053000740 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 401053000741 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 401053000742 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 401053000743 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 401053000744 dimer interface [polypeptide binding]; other site 401053000745 motif 1; other site 401053000746 active site 401053000747 motif 2; other site 401053000748 motif 3; other site 401053000749 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 401053000750 anticodon binding site; other site 401053000751 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 401053000752 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 401053000753 ligand binding site [chemical binding]; other site 401053000754 flexible hinge region; other site 401053000755 Helix-turn-helix domains; Region: HTH; cl00088 401053000756 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053000757 Helix-turn-helix domains; Region: HTH; cl00088 401053000758 7tm Chemosensory receptor; Region: 7tm_7; cl15280 401053000759 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 401053000760 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 401053000761 NADP binding site [chemical binding]; other site 401053000762 putative substrate binding site [chemical binding]; other site 401053000763 active site 401053000764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000765 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 401053000766 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 401053000767 Protein export membrane protein; Region: SecD_SecF; cl14618 401053000768 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 401053000769 Protein export membrane protein; Region: SecD_SecF; cl14618 401053000770 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 401053000771 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 401053000772 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 401053000773 hypothetical protein; Validated; Region: PRK08238 401053000774 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 401053000775 UbiA prenyltransferase family; Region: UbiA; cl00337 401053000776 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 401053000777 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 401053000778 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 401053000779 dimer interface [polypeptide binding]; other site 401053000780 motif 1; other site 401053000781 active site 401053000782 motif 2; other site 401053000783 motif 3; other site 401053000784 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 401053000785 Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]; Region: PheT; COG0072 401053000786 B3/4 domain; Region: B3_4; cl11458 401053000787 tRNA synthetase B5 domain; Region: B5; cl08394 401053000788 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 401053000789 dimer interface [polypeptide binding]; other site 401053000790 motif 1; other site 401053000791 motif 3; other site 401053000792 motif 2; other site 401053000793 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 401053000794 amino acid transporter; Region: 2A0306; TIGR00909 401053000795 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 401053000796 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 401053000797 active sites [active] 401053000798 tetramer interface [polypeptide binding]; other site 401053000799 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053000800 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; cl00284 401053000801 Helix-turn-helix domains; Region: HTH; cl00088 401053000802 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 401053000803 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053000804 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 401053000805 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053000806 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 401053000807 metal ion-dependent adhesion site (MIDAS); other site 401053000808 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 401053000809 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 401053000810 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 401053000811 4Fe-4S binding domain; Region: Fer4; cl02805 401053000812 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 401053000813 [4Fe-4S] binding site [ion binding]; other site 401053000814 molybdopterin cofactor binding site; other site 401053000815 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 401053000816 molybdopterin cofactor binding site; other site 401053000817 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 401053000818 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053000819 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 401053000820 metal ion-dependent adhesion site (MIDAS); other site 401053000821 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 401053000822 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 401053000823 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 401053000824 active site 401053000825 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 401053000826 tetratricopeptide repeat protein; Provisional; Region: PRK11788 401053000827 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 401053000828 catalytic residues [active] 401053000829 Cell division protein ZapA; Region: ZapA; cl01146 401053000830 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 401053000831 putative active site [active] 401053000832 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 401053000833 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 401053000834 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 401053000835 mRNA/rRNA interface [nucleotide binding]; other site 401053000836 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 401053000837 23S rRNA interface [nucleotide binding]; other site 401053000838 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 401053000839 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 401053000840 L11 interface [polypeptide binding]; other site 401053000841 putative EF-Tu interaction site [polypeptide binding]; other site 401053000842 putative EF-G interaction site [polypeptide binding]; other site 401053000843 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 401053000844 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 401053000845 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 401053000846 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 401053000847 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 401053000848 RPB11 interaction site [polypeptide binding]; other site 401053000849 RPB12 interaction site [polypeptide binding]; other site 401053000850 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 401053000851 RPB12 interaction site [polypeptide binding]; other site 401053000852 RPB3 interaction site [polypeptide binding]; other site 401053000853 RPB1 interaction site [polypeptide binding]; other site 401053000854 RPB11 interaction site [polypeptide binding]; other site 401053000855 RPB10 interaction site [polypeptide binding]; other site 401053000856 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 401053000857 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 401053000858 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 401053000859 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 401053000860 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 401053000861 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 401053000862 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 401053000863 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 401053000864 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 401053000865 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 401053000866 DNA binding site [nucleotide binding] 401053000867 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 401053000868 Transposase IS200 like; Region: Y1_Tnp; cl00848 401053000869 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053000870 Response regulator receiver domain; Region: Response_reg; pfam00072 401053000871 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 401053000872 active site 401053000873 phosphorylation site [posttranslational modification] 401053000874 intermolecular recognition site; other site 401053000875 dimerization interface [polypeptide binding]; other site 401053000876 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 401053000877 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 401053000878 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 401053000879 S-adenosylmethionine binding site [chemical binding]; other site 401053000880 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053000881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000882 NAD(P) binding site [chemical binding]; other site 401053000883 active site 401053000884 NIPSNAP; Region: NIPSNAP; pfam07978 401053000885 NIPSNAP; Region: NIPSNAP; pfam07978 401053000886 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 401053000887 Glyco_18 domain; Region: Glyco_18; smart00636 401053000888 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 401053000889 active site 401053000890 Glyco_18 domain; Region: Glyco_18; smart00636 401053000891 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 401053000892 active site 401053000893 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053000894 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 401053000895 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 401053000896 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 401053000897 Protein export membrane protein; Region: SecD_SecF; cl14618 401053000898 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 401053000899 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 401053000900 PA14 domain; Region: PA14; cl08459 401053000901 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 401053000902 Fibronectin type III-like domain; Region: Fn3-like; cl15273 401053000903 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 401053000904 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 401053000905 malonyl-CoA binding site [chemical binding]; other site 401053000906 dimer interface [polypeptide binding]; other site 401053000907 active site 401053000908 product binding site; other site 401053000909 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 401053000910 S-adenosylmethionine binding site [chemical binding]; other site 401053000911 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 401053000912 Phosphopantetheine attachment site; Region: PP-binding; cl09936 401053000913 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 401053000914 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 401053000915 dimer interface [polypeptide binding]; other site 401053000916 active site 401053000917 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 401053000918 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 401053000919 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 401053000920 active site 401053000921 catalytic site [active] 401053000922 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 401053000923 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 401053000924 Trp docking motif [polypeptide binding]; other site 401053000925 active site 401053000926 Cytochrome c; Region: Cytochrom_C; cl11414 401053000927 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 401053000928 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 401053000929 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 401053000930 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 401053000931 putative homodimer interface [polypeptide binding]; other site 401053000932 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 401053000933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053000934 UDP-galactopyranose mutase; Region: GLF; pfam03275 401053000935 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 401053000936 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053000937 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 401053000938 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 401053000939 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 401053000940 putative active site [active] 401053000941 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 401053000942 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 401053000943 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 401053000944 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 401053000945 synthetase active site [active] 401053000946 NTP binding site [chemical binding]; other site 401053000947 metal binding site [ion binding]; metal-binding site 401053000948 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 401053000949 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 401053000950 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053000951 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 401053000952 Walker A/P-loop; other site 401053000953 ATP binding site [chemical binding]; other site 401053000954 Q-loop/lid; other site 401053000955 ABC transporter signature motif; other site 401053000956 Walker B; other site 401053000957 D-loop; other site 401053000958 H-loop/switch region; other site 401053000959 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 401053000960 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 401053000961 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053000962 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 401053000963 metal ion-dependent adhesion site (MIDAS); other site 401053000964 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 401053000965 homotrimer interaction site [polypeptide binding]; other site 401053000966 putative active site [active] 401053000967 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 401053000968 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 401053000969 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 401053000970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053000971 Helix-turn-helix domains; Region: HTH; cl00088 401053000972 Isochorismatase family; Region: Isochorismatase; pfam00857 401053000973 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 401053000974 catalytic triad [active] 401053000975 conserved cis-peptide bond; other site 401053000976 H+ Antiporter protein; Region: 2A0121; TIGR00900 401053000977 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 401053000978 putative substrate translocation pore; other site 401053000979 Transposase; Region: DEDD_Tnp_IS110; pfam01548 401053000980 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 401053000981 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053000982 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053000983 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053000984 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053000985 FtsX-like permease family; Region: FtsX; cl15850 401053000986 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 401053000987 homotrimer interaction site [polypeptide binding]; other site 401053000988 putative active site [active] 401053000989 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 401053000990 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 401053000991 active site 401053000992 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 401053000993 DinB superfamily; Region: DinB_2; pfam12867 401053000994 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053000995 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 401053000996 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 401053000997 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 401053000998 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 401053000999 HEAT repeats; Region: HEAT_2; pfam13646 401053001000 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 401053001001 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053001002 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 401053001003 DNA binding residues [nucleotide binding] 401053001004 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 401053001005 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 401053001006 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053001007 Rhomboid family; Region: Rhomboid; cl11446 401053001008 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 401053001009 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 401053001010 active site 401053001011 catalytic tetrad [active] 401053001012 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 401053001013 NHL repeat; Region: NHL; pfam01436 401053001014 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 401053001015 NHL repeat; Region: NHL; pfam01436 401053001016 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 401053001017 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 401053001018 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053001019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053001020 NAD(P) binding site [chemical binding]; other site 401053001021 active site 401053001022 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 401053001023 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 401053001024 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 401053001025 DNA binding site [nucleotide binding] 401053001026 active site 401053001027 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; cd02619 401053001028 active site 401053001029 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 401053001030 PAS fold; Region: PAS_3; pfam08447 401053001031 putative active site [active] 401053001032 heme pocket [chemical binding]; other site 401053001033 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053001034 metal binding site [ion binding]; metal-binding site 401053001035 active site 401053001036 I-site; other site 401053001037 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 401053001038 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 401053001039 GAF domain; Region: GAF; cl15785 401053001040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053001041 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 401053001042 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_3; cd06151 401053001043 homotrimer interaction site [polypeptide binding]; other site 401053001044 putative active site [active] 401053001045 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 401053001046 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 401053001047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053001048 homodimer interface [polypeptide binding]; other site 401053001049 catalytic residue [active] 401053001050 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053001051 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 401053001052 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 401053001053 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 401053001054 FeS/SAM binding site; other site 401053001055 tyramine oxidase; Provisional; Region: tynA; PRK11504 401053001056 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 401053001057 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 401053001058 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 401053001059 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 401053001060 dimer interface [polypeptide binding]; other site 401053001061 active site 401053001062 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 401053001063 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 401053001064 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 401053001065 putative substrate translocation pore; other site 401053001066 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 401053001067 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 401053001068 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053001069 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053001070 Predicted bile acid beta-glucosidase [Carbohydrate transport and metabolism]; Region: COG4354 401053001071 beta-Glucocerebrosidase 2 N terminal; Region: GBA2_N; pfam12215 401053001072 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 401053001073 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 401053001074 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 401053001075 NADP-binding site; other site 401053001076 homotetramer interface [polypeptide binding]; other site 401053001077 substrate binding site [chemical binding]; other site 401053001078 homodimer interface [polypeptide binding]; other site 401053001079 active site 401053001080 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 401053001081 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 401053001082 NADP binding site [chemical binding]; other site 401053001083 active site 401053001084 putative substrate binding site [chemical binding]; other site 401053001085 nucleoside transporter; Region: 2A0110; TIGR00889 401053001086 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 401053001087 active site 401053001088 amidase; Provisional; Region: PRK07056 401053001089 Amidase; Region: Amidase; cl11426 401053001090 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 401053001091 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053001092 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 401053001093 homodimer interface [polypeptide binding]; other site 401053001094 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 401053001095 active site pocket [active] 401053001096 putative phosphoketolase; Provisional; Region: PRK05261 401053001097 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 401053001098 TPP-binding site; other site 401053001099 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 401053001100 XFP C-terminal domain; Region: XFP_C; pfam09363 401053001101 propionate/acetate kinase; Provisional; Region: PRK12379 401053001102 Acetokinase family; Region: Acetate_kinase; cl01029 401053001103 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 401053001104 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 401053001105 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 401053001106 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 401053001107 SLBB domain; Region: SLBB; pfam10531 401053001108 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 401053001109 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 401053001110 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 401053001111 active site 401053001112 Bacterial sugar transferase; Region: Bac_transf; cl00939 401053001113 Uncharacterized conserved protein [Function unknown]; Region: COG5476 401053001114 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 401053001115 MlrC C-terminus; Region: MlrC_C; pfam07171 401053001116 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053001117 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053001118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053001119 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 401053001120 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 401053001121 Metal-binding active site; metal-binding site 401053001122 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 401053001123 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053001124 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053001125 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 401053001126 FtsX-like permease family; Region: FtsX; cl15850 401053001127 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 401053001128 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 401053001129 homodimer interface [polypeptide binding]; other site 401053001130 NADP binding site [chemical binding]; other site 401053001131 substrate binding site [chemical binding]; other site 401053001132 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 401053001133 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 401053001134 CoA-binding site [chemical binding]; other site 401053001135 ATP-binding [chemical binding]; other site 401053001136 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 401053001137 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 401053001138 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 401053001139 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 401053001140 active site 401053001141 substrate binding site [chemical binding]; other site 401053001142 cosubstrate binding site; other site 401053001143 catalytic site [active] 401053001144 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 401053001145 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 401053001146 dimerization interface [polypeptide binding]; other site 401053001147 putative ATP binding site [chemical binding]; other site 401053001148 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 401053001149 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 401053001150 inhibitor-cofactor binding pocket; inhibition site 401053001151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053001152 catalytic residue [active] 401053001153 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 401053001154 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 401053001155 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 401053001156 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 401053001157 Domain interface; other site 401053001158 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 401053001159 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 401053001160 transketolase; Reviewed; Region: PRK05899 401053001161 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 401053001162 TPP-binding site [chemical binding]; other site 401053001163 dimer interface [polypeptide binding]; other site 401053001164 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 401053001165 PYR/PP interface [polypeptide binding]; other site 401053001166 dimer interface [polypeptide binding]; other site 401053001167 TPP binding site [chemical binding]; other site 401053001168 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 401053001169 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 401053001170 short chain dehydrogenase; Provisional; Region: PRK06180 401053001171 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 401053001172 NADP binding site [chemical binding]; other site 401053001173 active site 401053001174 steroid binding site; other site 401053001175 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 401053001176 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 401053001177 motif II; other site 401053001178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053001179 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 401053001180 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 401053001181 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 401053001182 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 401053001183 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 401053001184 putative active site [active] 401053001185 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053001186 glucokinase, proteobacterial type; Region: glk; TIGR00749 401053001187 Peptidase family M1; Region: Peptidase_M1; pfam01433 401053001188 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 401053001189 Zn binding site [ion binding]; other site 401053001190 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 401053001191 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 401053001192 Competence protein; Region: Competence; cl00471 401053001193 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053001194 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 401053001195 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; cl15754 401053001196 Type III pantothenate kinase; Region: Pan_kinase; cl09130 401053001197 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 401053001198 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 401053001199 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 401053001200 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 401053001201 dimerization interface [polypeptide binding]; other site 401053001202 active site 401053001203 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 401053001204 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 401053001205 active site 401053001206 HIGH motif; other site 401053001207 nucleotide binding site [chemical binding]; other site 401053001208 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 401053001209 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 401053001210 active site 401053001211 KMSKS motif; other site 401053001212 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 401053001213 tRNA binding surface [nucleotide binding]; other site 401053001214 anticodon binding site; other site 401053001215 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 401053001216 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 401053001217 Putative esterase; Region: Esterase; pfam00756 401053001218 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 401053001219 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 401053001220 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 401053001221 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 401053001222 substrate binding site [chemical binding]; other site 401053001223 hexamer interface [polypeptide binding]; other site 401053001224 metal binding site [ion binding]; metal-binding site 401053001225 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 401053001226 hypothetical protein; Validated; Region: PRK07883 401053001227 GIY-YIG motif/motif A; other site 401053001228 active site 401053001229 catalytic site [active] 401053001230 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 401053001231 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 401053001232 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 401053001233 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 401053001234 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 401053001235 DinB superfamily; Region: DinB_2; pfam12867 401053001236 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 401053001237 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 401053001238 FMN binding site [chemical binding]; other site 401053001239 active site 401053001240 catalytic residues [active] 401053001241 substrate binding site [chemical binding]; other site 401053001242 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 401053001243 hypothetical protein; Validated; Region: PRK08116 401053001244 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053001245 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 401053001246 active site 401053001247 tetramer interface; other site 401053001248 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 401053001249 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 401053001250 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 401053001251 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 401053001252 ATP binding site [chemical binding]; other site 401053001253 putative Mg++ binding site [ion binding]; other site 401053001254 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 401053001255 nucleotide binding region [chemical binding]; other site 401053001256 ATP-binding site [chemical binding]; other site 401053001257 TRCF domain; Region: TRCF; cl04088 401053001258 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 401053001259 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 401053001260 GatB domain; Region: GatB_Yqey; cl11497 401053001261 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 401053001262 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 401053001263 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 401053001264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053001265 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 401053001266 putative L-serine binding site [chemical binding]; other site 401053001267 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 401053001268 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 401053001269 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 401053001270 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 401053001271 catalytic residue [active] 401053001272 GatB domain; Region: GatB_Yqey; cl11497 401053001273 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 401053001274 RNA/DNA hybrid binding site [nucleotide binding]; other site 401053001275 active site 401053001276 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 401053001277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053001278 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; cd00531 401053001279 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 401053001280 Sodium:solute symporter family; Region: SSF; cl00456 401053001281 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 401053001282 homopentamer interface [polypeptide binding]; other site 401053001283 active site 401053001284 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 401053001285 putative RNA binding site [nucleotide binding]; other site 401053001286 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 401053001287 AMP binding site [chemical binding]; other site 401053001288 metal binding site [ion binding]; metal-binding site 401053001289 active site 401053001290 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053001291 classical (c) SDRs; Region: SDR_c; cd05233 401053001292 NAD(P) binding site [chemical binding]; other site 401053001293 active site 401053001294 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053001295 Helix-turn-helix domains; Region: HTH; cl00088 401053001296 Response regulator receiver domain; Region: Response_reg; pfam00072 401053001297 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 401053001298 active site 401053001299 phosphorylation site [posttranslational modification] 401053001300 intermolecular recognition site; other site 401053001301 dimerization interface [polypeptide binding]; other site 401053001302 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053001303 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053001304 FtsX-like permease family; Region: FtsX; cl15850 401053001305 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053001306 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 401053001307 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 401053001308 active site 401053001309 catalytic tetrad [active] 401053001310 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053001311 Helix-turn-helix domains; Region: HTH; cl00088 401053001312 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 401053001313 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 401053001314 non-specific DNA binding site [nucleotide binding]; other site 401053001315 salt bridge; other site 401053001316 sequence-specific DNA binding site [nucleotide binding]; other site 401053001317 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 401053001318 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 401053001319 active site 401053001320 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 401053001321 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 401053001322 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 401053001323 NAD binding site [chemical binding]; other site 401053001324 substrate binding site [chemical binding]; other site 401053001325 homodimer interface [polypeptide binding]; other site 401053001326 active site 401053001327 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 401053001328 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 401053001329 active site 401053001330 phosphorylation site [posttranslational modification] 401053001331 intermolecular recognition site; other site 401053001332 dimerization interface [polypeptide binding]; other site 401053001333 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 401053001334 Walker A motif; other site 401053001335 ATP binding site [chemical binding]; other site 401053001336 Walker B motif; other site 401053001337 arginine finger; other site 401053001338 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 401053001339 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 401053001340 Walker A motif; other site 401053001341 ATP binding site [chemical binding]; other site 401053001342 Walker B motif; other site 401053001343 arginine finger; other site 401053001344 Helix-turn-helix domains; Region: HTH; cl00088 401053001345 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053001346 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 401053001347 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 401053001348 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 401053001349 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 401053001350 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 401053001351 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 401053001352 DXD motif; other site 401053001353 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 401053001354 Bacterial sugar transferase; Region: Bac_transf; cl00939 401053001355 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 401053001356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053001357 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 401053001358 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053001359 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 401053001360 Chain length determinant protein; Region: Wzz; cl15801 401053001361 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 401053001362 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 401053001363 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 401053001364 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 401053001365 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 401053001366 TPR repeat; Region: TPR_11; pfam13414 401053001367 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 401053001368 binding surface 401053001369 TPR motif; other site 401053001370 TPR repeat; Region: TPR_11; pfam13414 401053001371 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 401053001372 binding surface 401053001373 TPR motif; other site 401053001374 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 401053001375 TPR motif; other site 401053001376 TPR repeat; Region: TPR_11; pfam13414 401053001377 binding surface 401053001378 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 401053001379 TPR motif; other site 401053001380 binding surface 401053001381 Tetratricopeptide repeat; Region: TPR_16; pfam13432 401053001382 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 401053001383 TPR motif; other site 401053001384 binding surface 401053001385 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 401053001386 binding surface 401053001387 TPR motif; other site 401053001388 TPR repeat; Region: TPR_11; pfam13414 401053001389 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 401053001390 binding surface 401053001391 TPR motif; other site 401053001392 TPR repeat; Region: TPR_11; pfam13414 401053001393 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 401053001394 TPR motif; other site 401053001395 binding surface 401053001396 TPR repeat; Region: TPR_11; pfam13414 401053001397 PEP-CTERM motif; Region: VPEP; cl15443 401053001398 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 401053001399 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053001400 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 401053001401 C-terminal peptidase (prc); Region: prc; TIGR00225 401053001402 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 401053001403 protein binding site [polypeptide binding]; other site 401053001404 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 401053001405 Catalytic dyad [active] 401053001406 SurA N-terminal domain; Region: SurA_N_3; cl07813 401053001407 periplasmic folding chaperone; Provisional; Region: PRK10788 401053001408 PPIC-type PPIASE domain; Region: Rotamase; cl08278 401053001409 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 401053001410 generic binding surface I; other site 401053001411 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 401053001412 generic binding surface II; other site 401053001413 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 401053001414 Zn2+ binding site [ion binding]; other site 401053001415 Mg2+ binding site [ion binding]; other site 401053001416 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053001417 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 401053001418 metal ion-dependent adhesion site (MIDAS); other site 401053001419 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 401053001420 Tetramer interface [polypeptide binding]; other site 401053001421 active site 401053001422 FMN-binding site [chemical binding]; other site 401053001423 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 401053001424 active site 401053001425 catalytic residues [active] 401053001426 metal binding site [ion binding]; metal-binding site 401053001427 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 401053001428 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 401053001429 putative active site [active] 401053001430 substrate binding site [chemical binding]; other site 401053001431 putative cosubstrate binding site; other site 401053001432 catalytic site [active] 401053001433 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 401053001434 substrate binding site [chemical binding]; other site 401053001435 16S rRNA methyltransferase B; Provisional; Region: PRK14902 401053001436 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 401053001437 putative RNA binding site [nucleotide binding]; other site 401053001438 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 401053001439 S-adenosylmethionine binding site [chemical binding]; other site 401053001440 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 401053001441 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 401053001442 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 401053001443 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 401053001444 Cation efflux family; Region: Cation_efflux; cl00316 401053001445 Cation efflux family; Region: Cation_efflux; cl00316 401053001446 Cation efflux family; Region: Cation_efflux; cl00316 401053001447 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 401053001448 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 401053001449 S-adenosylmethionine binding site [chemical binding]; other site 401053001450 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 401053001451 active site 401053001452 dimer interface [polypeptide binding]; other site 401053001453 metal binding site [ion binding]; metal-binding site 401053001454 Integral membrane protein TerC family; Region: TerC; cl10468 401053001455 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053001456 metal binding site [ion binding]; metal-binding site 401053001457 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 401053001458 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 401053001459 Uncharacterized conserved protein (DUF2203); Region: DUF2203; cl02056 401053001460 Haemolysin-III related; Region: HlyIII; cl03831 401053001461 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 401053001462 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 401053001463 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 401053001464 topology modulation protein; Reviewed; Region: PRK08118 401053001465 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053001466 active site 401053001467 Response regulator receiver domain; Region: Response_reg; pfam00072 401053001468 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 401053001469 active site 401053001470 phosphorylation site [posttranslational modification] 401053001471 intermolecular recognition site; other site 401053001472 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 401053001473 PAS domain; Region: PAS_9; pfam13426 401053001474 putative active site [active] 401053001475 heme pocket [chemical binding]; other site 401053001476 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053001477 metal binding site [ion binding]; metal-binding site 401053001478 active site 401053001479 I-site; other site 401053001480 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 401053001481 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 401053001482 metal binding site 2 [ion binding]; metal-binding site 401053001483 putative DNA binding helix; other site 401053001484 metal binding site 1 [ion binding]; metal-binding site 401053001485 dimer interface [polypeptide binding]; other site 401053001486 structural Zn2+ binding site [ion binding]; other site 401053001487 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 401053001488 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 401053001489 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 401053001490 ATP binding site [chemical binding]; other site 401053001491 Mg2+ binding site [ion binding]; other site 401053001492 G-X-G motif; other site 401053001493 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 401053001494 ATP binding site [chemical binding]; other site 401053001495 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 401053001496 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 401053001497 cytidylate kinase; Provisional; Region: cmk; PRK00023 401053001498 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 401053001499 CMP-binding site; other site 401053001500 The sites determining sugar specificity; other site 401053001501 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 401053001502 DNA-binding site [nucleotide binding]; DNA binding site 401053001503 RNA-binding motif; other site 401053001504 Membrane protein of unknown function; Region: DUF360; cl00850 401053001505 Transmembrane secretion effector; Region: MFS_3; pfam05977 401053001506 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 401053001507 putative substrate translocation pore; other site 401053001508 MEKHLA domain; Region: MEKHLA; pfam08670 401053001509 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 401053001510 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 401053001511 putative NAD(P) binding site [chemical binding]; other site 401053001512 dimer interface [polypeptide binding]; other site 401053001513 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 401053001514 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 401053001515 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 401053001516 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053001517 putative NAD(P) binding site [chemical binding]; other site 401053001518 Cupin domain; Region: Cupin_2; cl09118 401053001519 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053001520 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 401053001521 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053001522 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 401053001523 active site 401053001524 catalytic triad [active] 401053001525 oxyanion hole [active] 401053001526 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cl00039 401053001527 dimerization interface [polypeptide binding]; other site 401053001528 mannose binding site [chemical binding]; other site 401053001529 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 401053001530 TPP-binding site [chemical binding]; other site 401053001531 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 401053001532 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053001533 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053001534 homodimer interface [polypeptide binding]; other site 401053001535 active site 401053001536 TDP-binding site; other site 401053001537 acceptor substrate-binding pocket; other site 401053001538 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053001539 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 401053001540 phosphoglucomutase; Validated; Region: PRK07564 401053001541 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 401053001542 active site 401053001543 substrate binding site [chemical binding]; other site 401053001544 metal binding site [ion binding]; metal-binding site 401053001545 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 401053001546 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 401053001547 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 401053001548 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 401053001549 Response regulator receiver domain; Region: Response_reg; pfam00072 401053001550 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 401053001551 active site 401053001552 phosphorylation site [posttranslational modification] 401053001553 intermolecular recognition site; other site 401053001554 dimerization interface [polypeptide binding]; other site 401053001555 sensor protein KdpD; Provisional; Region: PRK10490 401053001556 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 401053001557 phosphorylation site [posttranslational modification] 401053001558 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 401053001559 ATP binding site [chemical binding]; other site 401053001560 Mg2+ binding site [ion binding]; other site 401053001561 G-X-G motif; other site 401053001562 Response regulator receiver domain; Region: Response_reg; pfam00072 401053001563 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 401053001564 active site 401053001565 phosphorylation site [posttranslational modification] 401053001566 intermolecular recognition site; other site 401053001567 dimerization interface [polypeptide binding]; other site 401053001568 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053001569 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 401053001570 nucleoside transporter; Region: nupC; TIGR00804 401053001571 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 401053001572 Nucleoside recognition; Region: Gate; cl00486 401053001573 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 401053001574 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 401053001575 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 401053001576 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 401053001577 ATP-binding site [chemical binding]; other site 401053001578 Sugar specificity; other site 401053001579 Pyrimidine base specificity; other site 401053001580 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 401053001581 putative acyl-acceptor binding pocket; other site 401053001582 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 401053001583 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 401053001584 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 401053001585 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 401053001586 active site 401053001587 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 401053001588 non-specific DNA binding site [nucleotide binding]; other site 401053001589 salt bridge; other site 401053001590 sequence-specific DNA binding site [nucleotide binding]; other site 401053001591 Deoxyhypusine synthase; Region: DS; cl00826 401053001592 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 401053001593 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 401053001594 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 401053001595 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 401053001596 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 401053001597 active site 401053001598 catalytic motif [active] 401053001599 Zn binding site [ion binding]; other site 401053001600 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 401053001601 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 401053001602 ATP binding site [chemical binding]; other site 401053001603 putative Mg++ binding site [ion binding]; other site 401053001604 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 401053001605 nucleotide binding region [chemical binding]; other site 401053001606 ATP-binding site [chemical binding]; other site 401053001607 DEAD/H associated; Region: DEAD_assoc; pfam08494 401053001608 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 401053001609 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 401053001610 putative DNA binding site [nucleotide binding]; other site 401053001611 catalytic residue [active] 401053001612 putative H2TH interface [polypeptide binding]; other site 401053001613 putative catalytic residues [active] 401053001614 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 401053001615 OpgC protein; Region: OpgC_C; cl00792 401053001616 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 401053001617 Transglycosylase; Region: Transgly; cl07896 401053001618 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053001619 prolyl-tRNA synthetase; Provisional; Region: PRK09194 401053001620 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 401053001621 dimer interface [polypeptide binding]; other site 401053001622 motif 1; other site 401053001623 active site 401053001624 motif 2; other site 401053001625 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 401053001626 putative deacylase active site [active] 401053001627 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 401053001628 active site 401053001629 motif 3; other site 401053001630 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 401053001631 anticodon binding site; other site 401053001632 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 401053001633 catalytic residues [active] 401053001634 KpsF/GutQ family protein; Region: kpsF; TIGR00393 401053001635 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 401053001636 putative active site [active] 401053001637 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 401053001638 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 401053001639 catalytic residues [active] 401053001640 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 401053001641 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 401053001642 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 401053001643 HIGH motif; other site 401053001644 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 401053001645 active site 401053001646 KMSKS motif; other site 401053001647 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 401053001648 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 401053001649 putative active site [active] 401053001650 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 401053001651 homotrimer interaction site [polypeptide binding]; other site 401053001652 zinc binding site [ion binding]; other site 401053001653 CDP-binding sites; other site 401053001654 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 401053001655 substrate binding site; other site 401053001656 dimer interface; other site 401053001657 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053001658 Coenzyme A binding pocket [chemical binding]; other site 401053001659 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 401053001660 Ligand Binding Site [chemical binding]; other site 401053001661 FtsH Extracellular; Region: FtsH_ext; pfam06480 401053001662 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 401053001663 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 401053001664 Walker A motif; other site 401053001665 ATP binding site [chemical binding]; other site 401053001666 Walker B motif; other site 401053001667 arginine finger; other site 401053001668 Peptidase family M41; Region: Peptidase_M41; pfam01434 401053001669 Lipopolysaccharide-assembly; Region: LptE; cl01125 401053001670 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 401053001671 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 401053001672 non-specific DNA binding site [nucleotide binding]; other site 401053001673 salt bridge; other site 401053001674 sequence-specific DNA binding site [nucleotide binding]; other site 401053001675 Predicted acyl esterases [General function prediction only]; Region: COG2936 401053001676 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 401053001677 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053001678 metal binding site [ion binding]; metal-binding site 401053001679 active site 401053001680 I-site; other site 401053001681 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 401053001682 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 401053001683 Helix-turn-helix domains; Region: HTH; cl00088 401053001684 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 401053001685 CGNR zinc finger; Region: zf-CGNR; pfam11706 401053001686 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 401053001687 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053001688 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 401053001689 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053001690 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 401053001691 NAD(P) binding site [chemical binding]; other site 401053001692 homotetramer interface [polypeptide binding]; other site 401053001693 homodimer interface [polypeptide binding]; other site 401053001694 active site 401053001695 Thymidylate synthase complementing protein; Region: Thy1; cl03630 401053001696 Thymidylate synthase complementing protein; Region: Thy1; cl03630 401053001697 recombinase A; Provisional; Region: recA; PRK09354 401053001698 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 401053001699 hexamer interface [polypeptide binding]; other site 401053001700 Walker A motif; other site 401053001701 ATP binding site [chemical binding]; other site 401053001702 Walker B motif; other site 401053001703 Helix-turn-helix domains; Region: HTH; cl00088 401053001704 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 401053001705 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053001706 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 401053001707 dimer interface [polypeptide binding]; other site 401053001708 RNA polymerase sigma factor; Provisional; Region: PRK12522 401053001709 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053001710 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 401053001711 DNA binding residues [nucleotide binding] 401053001712 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 401053001713 putative active site [active] 401053001714 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 401053001715 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 401053001716 active site 401053001717 (T/H)XGH motif; other site 401053001718 Cytochrome P450; Region: p450; pfam00067 401053001719 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 401053001720 aspartate aminotransferase; Provisional; Region: PRK05764 401053001721 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 401053001722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053001723 homodimer interface [polypeptide binding]; other site 401053001724 catalytic residue [active] 401053001725 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 401053001726 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 401053001727 active site 401053001728 substrate binding site [chemical binding]; other site 401053001729 metal binding site [ion binding]; metal-binding site 401053001730 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 401053001731 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 401053001732 motif II; other site 401053001733 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 401053001734 Ligand binding site; other site 401053001735 oligomer interface; other site 401053001736 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 401053001737 C-terminal peptidase (prc); Region: prc; TIGR00225 401053001738 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 401053001739 protein binding site [polypeptide binding]; other site 401053001740 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 401053001741 Catalytic dyad [active] 401053001742 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 401053001743 Transglycosylase; Region: Transgly; cl07896 401053001744 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053001745 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 401053001746 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 401053001747 active site 401053001748 Riboflavin kinase; Region: Flavokinase; cl03312 401053001749 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053001750 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 401053001751 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 401053001752 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 401053001753 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 401053001754 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 401053001755 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 401053001756 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 401053001757 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 401053001758 substrate binding site [chemical binding]; other site 401053001759 ATP binding site [chemical binding]; other site 401053001760 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 401053001761 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 401053001762 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 401053001763 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 401053001764 dimer interface [polypeptide binding]; other site 401053001765 catalytic triad [active] 401053001766 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 401053001767 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 401053001768 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 401053001769 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 401053001770 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 401053001771 putative acyl-acceptor binding pocket; other site 401053001772 Sporulation related domain; Region: SPOR; cl10051 401053001773 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 401053001774 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 401053001775 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 401053001776 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 401053001777 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053001778 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 401053001779 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 401053001780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053001781 NAD(P) binding site [chemical binding]; other site 401053001782 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 401053001783 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 401053001784 substrate-cofactor binding pocket; other site 401053001785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053001786 catalytic residue [active] 401053001787 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 401053001788 active site 401053001789 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 401053001790 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 401053001791 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 401053001792 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 401053001793 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 401053001794 active site 401053001795 Zn binding site [ion binding]; other site 401053001796 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 401053001797 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 401053001798 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 401053001799 FeS/SAM binding site; other site 401053001800 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053001801 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053001802 classical (c) SDRs; Region: SDR_c; cd05233 401053001803 NAD(P) binding site [chemical binding]; other site 401053001804 active site 401053001805 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 401053001806 S-adenosylmethionine binding site [chemical binding]; other site 401053001807 Helix-turn-helix domains; Region: HTH; cl00088 401053001808 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053001809 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053001810 FtsX-like permease family; Region: FtsX; cl15850 401053001811 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053001812 FtsX-like permease family; Region: FtsX; cl15850 401053001813 GAF domain; Region: GAF; cl15785 401053001814 GAF domain; Region: GAF_2; pfam13185 401053001815 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053001816 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053001817 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 401053001818 active site 401053001819 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 401053001820 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053001821 putative active site [active] 401053001822 putative metal binding site [ion binding]; other site 401053001823 cystathionine beta-lyase; Provisional; Region: PRK07050 401053001824 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 401053001825 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 401053001826 catalytic residue [active] 401053001827 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 401053001828 putative catalytic residue [active] 401053001829 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 401053001830 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053001831 classical (c) SDRs; Region: SDR_c; cd05233 401053001832 NAD(P) binding site [chemical binding]; other site 401053001833 active site 401053001834 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 401053001835 active site clefts [active] 401053001836 zinc binding site [ion binding]; other site 401053001837 dimer interface [polypeptide binding]; other site 401053001838 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 401053001839 Sulfate transporter family; Region: Sulfate_transp; cl15842 401053001840 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 401053001841 active site clefts [active] 401053001842 zinc binding site [ion binding]; other site 401053001843 dimer interface [polypeptide binding]; other site 401053001844 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 401053001845 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 401053001846 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 401053001847 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 401053001848 ligand binding site [chemical binding]; other site 401053001849 flexible hinge region; other site 401053001850 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 401053001851 putative switch regulator; other site 401053001852 non-specific DNA interactions [nucleotide binding]; other site 401053001853 DNA binding site [nucleotide binding] 401053001854 sequence specific DNA binding site [nucleotide binding]; other site 401053001855 putative cAMP binding site [chemical binding]; other site 401053001856 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 401053001857 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 401053001858 D-pathway; other site 401053001859 Low-spin heme binding site [chemical binding]; other site 401053001860 Putative water exit pathway; other site 401053001861 Binuclear center (active site) [active] 401053001862 K-pathway; other site 401053001863 Putative proton exit pathway; other site 401053001864 H+ Antiporter protein; Region: 2A0121; TIGR00900 401053001865 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 401053001866 putative substrate translocation pore; other site 401053001867 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 401053001868 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 401053001869 Walker A/P-loop; other site 401053001870 ATP binding site [chemical binding]; other site 401053001871 Q-loop/lid; other site 401053001872 ABC transporter signature motif; other site 401053001873 Walker B; other site 401053001874 D-loop; other site 401053001875 H-loop/switch region; other site 401053001876 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 401053001877 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 401053001878 mce related protein; Region: MCE; pfam02470 401053001879 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 401053001880 putative ADP-ribose binding site [chemical binding]; other site 401053001881 putative active site [active] 401053001882 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 401053001883 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 401053001884 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 401053001885 RNA binding surface [nucleotide binding]; other site 401053001886 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 401053001887 active site 401053001888 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 401053001889 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 401053001890 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 401053001891 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 401053001892 active site 401053001893 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 401053001894 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 401053001895 active site 401053001896 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 401053001897 active site 401053001898 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 401053001899 DEAD-like helicases superfamily; Region: DEXDc; smart00487 401053001900 ATP binding site [chemical binding]; other site 401053001901 Mg++ binding site [ion binding]; other site 401053001902 motif III; other site 401053001903 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 401053001904 nucleotide binding region [chemical binding]; other site 401053001905 ATP-binding site [chemical binding]; other site 401053001906 TIGR03118 family protein; Region: PEPCTERM_chp_1 401053001907 RNA polymerase sigma factor, SigZ family; Region: SigZ; TIGR02959 401053001908 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053001909 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053001910 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 401053001911 ribonuclease PH; Reviewed; Region: rph; PRK00173 401053001912 Ribonuclease PH; Region: RNase_PH_bact; cd11362 401053001913 hexamer interface [polypeptide binding]; other site 401053001914 active site 401053001915 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 401053001916 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 401053001917 active site 401053001918 phosphorylation site [posttranslational modification] 401053001919 intermolecular recognition site; other site 401053001920 dimerization interface [polypeptide binding]; other site 401053001921 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 401053001922 Walker A motif; other site 401053001923 ATP binding site [chemical binding]; other site 401053001924 Walker B motif; other site 401053001925 arginine finger; other site 401053001926 Helix-turn-helix domains; Region: HTH; cl00088 401053001927 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 401053001928 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 401053001929 Predicted acyl esterases [General function prediction only]; Region: COG2936 401053001930 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 401053001931 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 401053001932 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 401053001933 dimer interface [polypeptide binding]; other site 401053001934 ADP-ribose binding site [chemical binding]; other site 401053001935 active site 401053001936 nudix motif; other site 401053001937 metal binding site [ion binding]; metal-binding site 401053001938 Cupin domain; Region: Cupin_2; cl09118 401053001939 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 401053001940 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 401053001941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053001942 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 401053001943 metal ion-dependent adhesion site (MIDAS); other site 401053001944 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 401053001945 active site 401053001946 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 401053001947 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 401053001948 MgtC family; Region: MgtC; pfam02308 401053001949 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 401053001950 TPR motif; other site 401053001951 binding surface 401053001952 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 401053001953 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 401053001954 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 401053001955 Walker A motif; other site 401053001956 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 401053001957 Helix-turn-helix domains; Region: HTH; cl00088 401053001958 HrcA protein C terminal domain; Region: HrcA; pfam01628 401053001959 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 401053001960 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 401053001961 dimer interface [polypeptide binding]; other site 401053001962 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 401053001963 chaperone protein DnaJ; Provisional; Region: PRK10767 401053001964 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 401053001965 HSP70 interaction site [polypeptide binding]; other site 401053001966 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 401053001967 substrate binding site [polypeptide binding]; other site 401053001968 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 401053001969 Zn binding sites [ion binding]; other site 401053001970 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 401053001971 dimer interface [polypeptide binding]; other site 401053001972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 401053001973 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 401053001974 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 401053001975 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 401053001976 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 401053001977 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 401053001978 Mg chelatase-related protein; Region: TIGR00368 401053001979 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 401053001980 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053001981 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 401053001982 transcription termination factor Rho; Provisional; Region: rho; PRK09376 401053001983 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 401053001984 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 401053001985 RNA binding site [nucleotide binding]; other site 401053001986 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 401053001987 multimer interface [polypeptide binding]; other site 401053001988 Walker A motif; other site 401053001989 ATP binding site [chemical binding]; other site 401053001990 Walker B motif; other site 401053001991 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 401053001992 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 401053001993 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 401053001994 active site 401053001995 substrate-binding site [chemical binding]; other site 401053001996 metal-binding site [ion binding] 401053001997 GTP binding site [chemical binding]; other site 401053001998 Domain of unknown function (DUF718); Region: DUF718; cl01281 401053001999 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 401053002000 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 401053002001 dimer interface [polypeptide binding]; other site 401053002002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053002003 catalytic residue [active] 401053002004 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; cl02915 401053002005 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 401053002006 Cl- selectivity filter; other site 401053002007 Cl- binding residues [ion binding]; other site 401053002008 pore gating glutamate residue; other site 401053002009 dimer interface [polypeptide binding]; other site 401053002010 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 401053002011 iron-sulfur cluster [ion binding]; other site 401053002012 [2Fe-2S] cluster binding site [ion binding]; other site 401053002013 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 401053002014 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 401053002015 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 401053002016 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002017 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 401053002018 CEO family (DUF1632); Region: DUF1632; pfam07857 401053002019 EamA-like transporter family; Region: EamA; cl01037 401053002020 Transcriptional regulators [Transcription]; Region: PurR; COG1609 401053002021 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 401053002022 DNA binding site [nucleotide binding] 401053002023 domain linker motif; other site 401053002024 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 401053002025 dimerization interface [polypeptide binding]; other site 401053002026 ligand binding site [chemical binding]; other site 401053002027 Family of unknown function (DUF706); Region: DUF706; pfam05153 401053002028 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002029 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 401053002030 putative active site [active] 401053002031 catalytic site [active] 401053002032 putative metal binding site [ion binding]; other site 401053002033 Transcriptional regulators [Transcription]; Region: MarR; COG1846 401053002034 Helix-turn-helix domains; Region: HTH; cl00088 401053002035 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053002036 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 401053002037 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 401053002038 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 401053002039 Fibronectin type III-like domain; Region: Fn3-like; cl15273 401053002040 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 401053002041 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 401053002042 D-galactonate transporter; Region: 2A0114; TIGR00893 401053002043 putative substrate translocation pore; other site 401053002044 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 401053002045 Histidine kinase; Region: HisKA_3; pfam07730 401053002046 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 401053002047 ATP binding site [chemical binding]; other site 401053002048 Mg2+ binding site [ion binding]; other site 401053002049 G-X-G motif; other site 401053002050 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053002051 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 401053002052 active site 401053002053 phosphorylation site [posttranslational modification] 401053002054 intermolecular recognition site; other site 401053002055 dimerization interface [polypeptide binding]; other site 401053002056 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 401053002057 DNA binding residues [nucleotide binding] 401053002058 dimerization interface [polypeptide binding]; other site 401053002059 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002060 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; cl00284 401053002061 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 401053002062 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 401053002063 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 401053002064 homotrimer interaction site [polypeptide binding]; other site 401053002065 putative active site [active] 401053002066 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 401053002067 dihydroorotase; Provisional; Region: PRK09237 401053002068 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 401053002069 active site 401053002070 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 401053002071 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 401053002072 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 401053002073 Walker A/P-loop; other site 401053002074 ATP binding site [chemical binding]; other site 401053002075 Q-loop/lid; other site 401053002076 ABC transporter signature motif; other site 401053002077 Walker B; other site 401053002078 D-loop; other site 401053002079 H-loop/switch region; other site 401053002080 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 401053002081 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053002082 FtsX-like permease family; Region: FtsX; cl15850 401053002083 CutC family; Region: CutC; cl01218 401053002084 Response regulator receiver domain; Region: Response_reg; pfam00072 401053002085 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 401053002086 active site 401053002087 phosphorylation site [posttranslational modification] 401053002088 intermolecular recognition site; other site 401053002089 dimerization interface [polypeptide binding]; other site 401053002090 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 401053002091 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053002092 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 401053002093 active site 401053002094 phosphorylation site [posttranslational modification] 401053002095 intermolecular recognition site; other site 401053002096 dimerization interface [polypeptide binding]; other site 401053002097 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 401053002098 DNA binding residues [nucleotide binding] 401053002099 dimerization interface [polypeptide binding]; other site 401053002100 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 401053002101 ligand binding site [chemical binding]; other site 401053002102 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 401053002103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002104 NAD(P) binding site [chemical binding]; other site 401053002105 active site 401053002106 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 401053002107 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 401053002108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053002109 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 401053002110 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 401053002111 Predicted membrane protein [Function unknown]; Region: COG4270 401053002112 Bacitracin resistance protein BacA; Region: BacA; cl00858 401053002113 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 401053002114 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 401053002115 tetramer interface [polypeptide binding]; other site 401053002116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053002117 catalytic residue [active] 401053002118 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 401053002119 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 401053002120 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 401053002121 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053002122 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 401053002123 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053002124 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 401053002125 metal ion-dependent adhesion site (MIDAS); other site 401053002126 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 401053002127 trimer interface [polypeptide binding]; other site 401053002128 active site 401053002129 substrate binding site [chemical binding]; other site 401053002130 CoA binding site [chemical binding]; other site 401053002131 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 401053002132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002133 threonine synthase; Validated; Region: PRK08197 401053002134 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 401053002135 homodimer interface [polypeptide binding]; other site 401053002136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053002137 catalytic residue [active] 401053002138 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002139 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; cl00284 401053002140 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 401053002141 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 401053002142 dihydrodipicolinate synthase; Region: dapA; TIGR00674 401053002143 dimer interface [polypeptide binding]; other site 401053002144 active site 401053002145 catalytic residue [active] 401053002146 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 401053002147 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 401053002148 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 401053002149 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 401053002150 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053002151 active site 401053002152 metal binding site [ion binding]; metal-binding site 401053002153 dihydrodipicolinate reductase; Provisional; Region: PRK00048 401053002154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002155 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 401053002156 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 401053002157 aspartate kinase III; Validated; Region: PRK09084 401053002158 putative catalytic residues [active] 401053002159 nucleotide binding site [chemical binding]; other site 401053002160 aspartate binding site [chemical binding]; other site 401053002161 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 401053002162 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 401053002163 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 401053002164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002165 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 401053002166 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002167 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 401053002168 ATP cone domain; Region: ATP-cone; pfam03477 401053002169 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 401053002170 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 401053002171 N-acetyl-D-glucosamine binding site [chemical binding]; other site 401053002172 catalytic residue [active] 401053002173 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 401053002174 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 401053002175 active site 401053002176 motif I; other site 401053002177 motif II; other site 401053002178 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 401053002179 EamA-like transporter family; Region: EamA; cl01037 401053002180 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 401053002181 EamA-like transporter family; Region: EamA; cl01037 401053002182 rod shape-determining protein MreD; Region: MreD; cl01087 401053002183 rod shape-determining protein MreC; Provisional; Region: PRK13922 401053002184 rod shape-determining protein MreC; Region: MreC; pfam04085 401053002185 rod shape-determining protein MreB; Provisional; Region: PRK13927 401053002186 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 401053002187 ATP binding site [chemical binding]; other site 401053002188 profilin binding site; other site 401053002189 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 401053002190 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 401053002191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002192 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 401053002193 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 401053002194 dimerization interface [polypeptide binding]; other site 401053002195 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 401053002196 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 401053002197 dimer interface [polypeptide binding]; other site 401053002198 phosphorylation site [posttranslational modification] 401053002199 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 401053002200 ATP binding site [chemical binding]; other site 401053002201 Mg2+ binding site [ion binding]; other site 401053002202 G-X-G motif; other site 401053002203 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 401053002204 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 401053002205 active site 401053002206 phosphorylation site [posttranslational modification] 401053002207 intermolecular recognition site; other site 401053002208 dimerization interface [polypeptide binding]; other site 401053002209 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 401053002210 Walker A motif; other site 401053002211 ATP binding site [chemical binding]; other site 401053002212 Walker B motif; other site 401053002213 arginine finger; other site 401053002214 Helix-turn-helix domains; Region: HTH; cl00088 401053002215 GTPase Era; Reviewed; Region: era; PRK00089 401053002216 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 401053002217 G1 box; other site 401053002218 GTP/Mg2+ binding site [chemical binding]; other site 401053002219 Switch I region; other site 401053002220 G2 box; other site 401053002221 Switch II region; other site 401053002222 G3 box; other site 401053002223 G4 box; other site 401053002224 G5 box; other site 401053002225 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 401053002226 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 401053002227 Transporter associated domain; Region: CorC_HlyC; cl08393 401053002228 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 401053002229 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 401053002230 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053002231 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 401053002232 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002233 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; cl00284 401053002234 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 401053002235 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 401053002236 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 401053002237 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053002238 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 401053002239 Protein of unknown function (DUF541); Region: SIMPL; cl01077 401053002240 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 401053002241 RNA binding site [nucleotide binding]; other site 401053002242 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 401053002243 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 401053002244 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 401053002245 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 401053002246 putative substrate translocation pore; other site 401053002247 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 401053002248 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 401053002249 proline aminopeptidase P II; Provisional; Region: PRK10879 401053002250 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 401053002251 active site 401053002252 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 401053002253 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 401053002254 DXD motif; other site 401053002255 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 401053002256 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 401053002257 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 401053002258 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 401053002259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002260 hypothetical protein; Provisional; Region: PRK07588 401053002261 Vitamin K epoxide reductase family; Region: VKOR; cl01729 401053002262 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 401053002263 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase; Region: PLN02520 401053002264 active site 401053002265 catalytic residue [active] 401053002266 dimer interface [polypeptide binding]; other site 401053002267 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 401053002268 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 401053002269 shikimate binding site; other site 401053002270 NAD(P) binding site [chemical binding]; other site 401053002271 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 401053002272 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 401053002273 dimer interface [polypeptide binding]; other site 401053002274 ssDNA binding site [nucleotide binding]; other site 401053002275 tetramer (dimer of dimers) interface [polypeptide binding]; other site 401053002276 EamA-like transporter family; Region: EamA; cl01037 401053002277 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 401053002278 EamA-like transporter family; Region: EamA; cl01037 401053002279 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; cl00238 401053002280 putative iron binding site [ion binding]; other site 401053002281 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 401053002282 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 401053002283 putative metal binding site; other site 401053002284 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 401053002285 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 401053002286 Protein of unknown function (DUF420); Region: DUF420; cl00989 401053002287 UbiA prenyltransferase family; Region: UbiA; cl00337 401053002288 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 401053002289 shikimate kinase; Reviewed; Region: aroK; PRK00131 401053002290 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 401053002291 ADP binding site [chemical binding]; other site 401053002292 magnesium binding site [ion binding]; other site 401053002293 putative shikimate binding site; other site 401053002294 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 401053002295 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053002296 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 401053002297 DNA binding residues [nucleotide binding] 401053002298 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 401053002299 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 401053002300 ATP binding site [chemical binding]; other site 401053002301 substrate interface [chemical binding]; other site 401053002302 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 401053002303 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 401053002304 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 401053002305 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 401053002306 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 401053002307 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 401053002308 Mg++ binding site [ion binding]; other site 401053002309 putative catalytic motif [active] 401053002310 putative substrate binding site [chemical binding]; other site 401053002311 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 401053002312 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 401053002313 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 401053002314 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 401053002315 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 401053002316 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 401053002317 active site 401053002318 homodimer interface [polypeptide binding]; other site 401053002319 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 401053002320 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 401053002321 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 401053002322 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 401053002323 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 401053002324 Cell division protein FtsQ; Region: FtsQ; pfam03799 401053002325 cell division protein FtsA; Region: ftsA; TIGR01174 401053002326 Cell division protein FtsA; Region: FtsA; cl11496 401053002327 Cell division protein FtsA; Region: FtsA; cl11496 401053002328 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 401053002329 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 401053002330 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 401053002331 nucleotide binding site [chemical binding]; other site 401053002332 SulA interaction site; other site 401053002333 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053002334 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 401053002335 putative carbohydrate kinase; Provisional; Region: PRK10565 401053002336 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 401053002337 putative substrate binding site [chemical binding]; other site 401053002338 putative ATP binding site [chemical binding]; other site 401053002339 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 401053002340 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 401053002341 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 401053002342 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 401053002343 conserved cys residue [active] 401053002344 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053002345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053002346 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 401053002347 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 401053002348 Ferritin-like domain; Region: Ferritin; pfam00210 401053002349 dimerization interface [polypeptide binding]; other site 401053002350 DPS ferroxidase diiron center [ion binding]; other site 401053002351 ion pore; other site 401053002352 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 401053002353 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 401053002354 ABC transporter; Region: ABC_tran_2; pfam12848 401053002355 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 401053002356 OpgC protein; Region: OpgC_C; cl00792 401053002357 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 401053002358 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 401053002359 NAD binding site [chemical binding]; other site 401053002360 homotetramer interface [polypeptide binding]; other site 401053002361 homodimer interface [polypeptide binding]; other site 401053002362 substrate binding site [chemical binding]; other site 401053002363 active site 401053002364 EVE domain; Region: EVE; cl00728 401053002365 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 401053002366 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 401053002367 active site 401053002368 catalytic tetrad [active] 401053002369 Sporulation and spore germination; Region: Germane; cl11253 401053002370 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 401053002371 active site 401053002372 metal binding site [ion binding]; metal-binding site 401053002373 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 401053002374 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053002375 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 401053002376 metal ion-dependent adhesion site (MIDAS); other site 401053002377 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053002378 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 401053002379 metal ion-dependent adhesion site (MIDAS); other site 401053002380 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 401053002381 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 401053002382 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053002383 Coenzyme A binding pocket [chemical binding]; other site 401053002384 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 401053002385 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 401053002386 Aspartate-semialdehyde dehydrogenase [Amino acid transport and metabolism]; Region: Asd; COG0136 401053002387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002388 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 401053002389 seryl-tRNA synthetase; Provisional; Region: PRK05431 401053002390 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 401053002391 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 401053002392 dimer interface [polypeptide binding]; other site 401053002393 active site 401053002394 motif 1; other site 401053002395 motif 2; other site 401053002396 motif 3; other site 401053002397 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 401053002398 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 401053002399 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 401053002400 heterodimer interface [polypeptide binding]; other site 401053002401 active site 401053002402 FMN binding site [chemical binding]; other site 401053002403 homodimer interface [polypeptide binding]; other site 401053002404 substrate binding site [chemical binding]; other site 401053002405 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 401053002406 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 401053002407 purine monophosphate binding site [chemical binding]; other site 401053002408 dimer interface [polypeptide binding]; other site 401053002409 putative catalytic residues [active] 401053002410 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 401053002411 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 401053002412 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 401053002413 binding surface 401053002414 TPR motif; other site 401053002415 TPR repeat; Region: TPR_11; pfam13414 401053002416 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 401053002417 binding surface 401053002418 TPR motif; other site 401053002419 TPR repeat; Region: TPR_11; pfam13414 401053002420 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 401053002421 binding surface 401053002422 TPR motif; other site 401053002423 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 401053002424 TPR motif; other site 401053002425 binding surface 401053002426 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 401053002427 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 401053002428 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 401053002429 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 401053002430 active site 401053002431 probable sporulation protein, polysaccharide deacetylase family; Region: spore_ylxY; TIGR02873 401053002432 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 401053002433 NodB motif; other site 401053002434 putative active site [active] 401053002435 putative catalytic site [active] 401053002436 putative Zn binding site [ion binding]; other site 401053002437 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 401053002438 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 401053002439 DXD motif; other site 401053002440 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 401053002441 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053002442 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 401053002443 DNA binding residues [nucleotide binding] 401053002444 dimerization interface [polypeptide binding]; other site 401053002445 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 401053002446 Response regulator receiver domain; Region: Response_reg; pfam00072 401053002447 active site 401053002448 phosphorylation site [posttranslational modification] 401053002449 intermolecular recognition site; other site 401053002450 dimerization interface [polypeptide binding]; other site 401053002451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002452 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 401053002453 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 401053002454 ligand binding site [chemical binding]; other site 401053002455 flexible hinge region; other site 401053002456 sensory histidine kinase AtoS; Provisional; Region: PRK11360 401053002457 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 401053002458 ATP binding site [chemical binding]; other site 401053002459 Mg2+ binding site [ion binding]; other site 401053002460 G-X-G motif; other site 401053002461 ApbE family; Region: ApbE; cl00643 401053002462 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053002463 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 401053002464 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053002465 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053002466 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 401053002467 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053002468 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 401053002469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053002470 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 401053002471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053002472 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 401053002473 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053002474 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 401053002475 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 401053002476 catalytic residues [active] 401053002477 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 401053002478 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 401053002479 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 401053002480 4Fe-4S binding domain; Region: Fer4; cl02805 401053002481 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 401053002482 threonine synthase; Validated; Region: PRK07591 401053002483 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 401053002484 homodimer interface [polypeptide binding]; other site 401053002485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053002486 catalytic residue [active] 401053002487 Ubiquitin-like proteins; Region: UBQ; cl00155 401053002488 charged pocket; other site 401053002489 hydrophobic patch; other site 401053002490 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 401053002491 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 401053002492 Found in ATP-dependent protease La (LON); Region: LON; smart00464 401053002493 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 401053002494 Walker A motif; other site 401053002495 ATP binding site [chemical binding]; other site 401053002496 Walker B motif; other site 401053002497 arginine finger; other site 401053002498 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 401053002499 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 401053002500 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 401053002501 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 401053002502 Walker A motif; other site 401053002503 ATP binding site [chemical binding]; other site 401053002504 Walker B motif; other site 401053002505 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 401053002506 Clp protease; Region: CLP_protease; pfam00574 401053002507 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 401053002508 oligomer interface [polypeptide binding]; other site 401053002509 active site residues [active] 401053002510 trigger factor; Region: tig; TIGR00115 401053002511 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 401053002512 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 401053002513 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 401053002514 active site 401053002515 catalytic residues [active] 401053002516 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 401053002517 Fe-S cluster binding site [ion binding]; other site 401053002518 DNA binding site [nucleotide binding] 401053002519 active site 401053002520 YtxH-like protein; Region: YtxH; cl02079 401053002521 Clp protease ATP binding subunit; Region: clpC; CHL00095 401053002522 Clp amino terminal domain; Region: Clp_N; pfam02861 401053002523 Clp amino terminal domain; Region: Clp_N; pfam02861 401053002524 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 401053002525 Walker A motif; other site 401053002526 ATP binding site [chemical binding]; other site 401053002527 Walker B motif; other site 401053002528 arginine finger; other site 401053002529 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 401053002530 Walker A motif; other site 401053002531 ATP binding site [chemical binding]; other site 401053002532 Walker B motif; other site 401053002533 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 401053002534 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 401053002535 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 401053002536 Walker A/P-loop; other site 401053002537 ATP binding site [chemical binding]; other site 401053002538 Q-loop/lid; other site 401053002539 ABC transporter signature motif; other site 401053002540 Walker B; other site 401053002541 D-loop; other site 401053002542 H-loop/switch region; other site 401053002543 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 401053002544 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 401053002545 metal binding triad; other site 401053002546 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 401053002547 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 401053002548 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 401053002549 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 401053002550 Nitrogen regulatory protein P-II; Region: P-II; cl00412 401053002551 Nitrogen regulatory protein P-II; Region: P-II; smart00938 401053002552 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 401053002553 NADH dehydrogenase subunit B; Validated; Region: PRK06411 401053002554 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 401053002555 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 401053002556 ligand binding site [chemical binding]; other site 401053002557 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 401053002558 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 401053002559 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 401053002560 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 401053002561 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 401053002562 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053002563 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 401053002564 isocitrate dehydrogenase; Validated; Region: PRK07362 401053002565 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 401053002566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002567 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 401053002568 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 401053002569 active site 401053002570 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 401053002571 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 401053002572 active site 401053002573 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 401053002574 active site 401053002575 dimer interface [polypeptide binding]; other site 401053002576 DinB superfamily; Region: DinB_2; pfam12867 401053002577 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053002578 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 401053002579 active site 401053002580 metal binding site [ion binding]; metal-binding site 401053002581 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 401053002582 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 401053002583 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 401053002584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002585 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 401053002586 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 401053002587 putative Iron-sulfur protein interface [polypeptide binding]; other site 401053002588 proximal heme binding site [chemical binding]; other site 401053002589 distal heme binding site [chemical binding]; other site 401053002590 putative dimer interface [polypeptide binding]; other site 401053002591 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 401053002592 active site 401053002593 dimerization interface [polypeptide binding]; other site 401053002594 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 401053002595 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 401053002596 substrate binding site [chemical binding]; other site 401053002597 ATP binding site [chemical binding]; other site 401053002598 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 401053002599 Peptidase family M48; Region: Peptidase_M48; cl12018 401053002600 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 401053002601 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053002602 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053002603 active site 401053002604 TDP-binding site; other site 401053002605 acceptor substrate-binding pocket; other site 401053002606 homodimer interface [polypeptide binding]; other site 401053002607 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 401053002608 D-galactonate transporter; Region: 2A0114; TIGR00893 401053002609 putative substrate translocation pore; other site 401053002610 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 401053002611 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 401053002612 DXD motif; other site 401053002613 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 401053002614 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 401053002615 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 401053002616 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 401053002617 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 401053002618 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 401053002619 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 401053002620 Peptidase family M23; Region: Peptidase_M23; pfam01551 401053002621 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002622 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053002623 outer membrane receptor FepA; Provisional; Region: PRK13524 401053002624 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 401053002625 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 401053002626 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 401053002627 Helix-turn-helix domains; Region: HTH; cl00088 401053002628 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 401053002629 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053002630 Zn binding site [ion binding]; other site 401053002631 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 401053002632 Zn binding site [ion binding]; other site 401053002633 Predicted esterase [General function prediction only]; Region: COG0400 401053002634 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 401053002635 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053002636 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 401053002637 active site 401053002638 phosphorylation site [posttranslational modification] 401053002639 intermolecular recognition site; other site 401053002640 dimerization interface [polypeptide binding]; other site 401053002641 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 401053002642 DNA binding site [nucleotide binding] 401053002643 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 401053002644 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 401053002645 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 401053002646 dimer interface [polypeptide binding]; other site 401053002647 phosphorylation site [posttranslational modification] 401053002648 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 401053002649 ATP binding site [chemical binding]; other site 401053002650 Mg2+ binding site [ion binding]; other site 401053002651 G-X-G motif; other site 401053002652 Uncharacterized conserved protein [Function unknown]; Region: COG3391 401053002653 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 401053002654 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 401053002655 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 401053002656 Protein export membrane protein; Region: SecD_SecF; cl14618 401053002657 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053002658 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 401053002659 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 401053002660 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053002661 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002662 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 401053002663 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; cl00284 401053002664 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 401053002665 putative catalytic residue [active] 401053002666 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 401053002667 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 401053002668 catalytic residues [active] 401053002669 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 401053002670 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 401053002671 active site 401053002672 catalytic tetrad [active] 401053002673 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 401053002674 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 401053002675 Flagellar protein FliS; Region: FliS; cl00654 401053002676 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053002677 classical (c) SDRs; Region: SDR_c; cd05233 401053002678 NAD(P) binding site [chemical binding]; other site 401053002679 active site 401053002680 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 401053002681 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 401053002682 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 401053002683 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 401053002684 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 401053002685 Domain of unknown function (DUF336); Region: DUF336; cl01249 401053002686 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 401053002687 FAD binding domain; Region: FAD_binding_4; pfam01565 401053002688 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 401053002689 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 401053002690 Cysteine-rich domain; Region: CCG; pfam02754 401053002691 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 401053002692 catalytic residues [active] 401053002693 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 401053002694 active site 401053002695 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 401053002696 D-galactonate transporter; Region: 2A0114; TIGR00893 401053002697 putative substrate translocation pore; other site 401053002698 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053002699 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 401053002700 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053002701 NADP binding site [chemical binding]; other site 401053002702 homodimer interface [polypeptide binding]; other site 401053002703 active site 401053002704 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 401053002705 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 401053002706 putative NAD(P) binding site [chemical binding]; other site 401053002707 catalytic Zn binding site [ion binding]; other site 401053002708 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 401053002709 active site 401053002710 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 401053002711 active site 401053002712 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 401053002713 GTP cyclohydrolase I; Provisional; Region: PLN03044 401053002714 homodecamer interface [polypeptide binding]; other site 401053002715 active site 401053002716 putative catalytic site residues [active] 401053002717 zinc binding site [ion binding]; other site 401053002718 GTP-CH-I/GFRP interaction surface; other site 401053002719 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 401053002720 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 401053002721 RNA binding site [nucleotide binding]; other site 401053002722 active site 401053002723 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 401053002724 active site 401053002725 catalytic triad [active] 401053002726 oxyanion hole [active] 401053002727 switch loop; other site 401053002728 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 401053002729 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 401053002730 Walker A/P-loop; other site 401053002731 ATP binding site [chemical binding]; other site 401053002732 Q-loop/lid; other site 401053002733 ABC transporter signature motif; other site 401053002734 Walker B; other site 401053002735 D-loop; other site 401053002736 H-loop/switch region; other site 401053002737 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 401053002738 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 401053002739 FtsX-like permease family; Region: FtsX; cl15850 401053002740 Helix-turn-helix domains; Region: HTH; cl00088 401053002741 GXWXG protein; Region: GXWXG; pfam14231 401053002742 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 401053002743 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 401053002744 tetramer (dimer of dimers) interface [polypeptide binding]; other site 401053002745 active site 401053002746 dimer interface [polypeptide binding]; other site 401053002747 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 401053002748 Catalytic domain of Protein Kinases; Region: PKc; cd00180 401053002749 active site 401053002750 ATP binding site [chemical binding]; other site 401053002751 substrate binding site [chemical binding]; other site 401053002752 activation loop (A-loop); other site 401053002753 MAEBL; Provisional; Region: PTZ00121 401053002754 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 401053002755 binding surface 401053002756 TPR motif; other site 401053002757 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 401053002758 binding surface 401053002759 TPR motif; other site 401053002760 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 401053002761 Protein phosphatase 2C; Region: PP2C; pfam00481 401053002762 active site 401053002763 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 401053002764 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 401053002765 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 401053002766 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 401053002767 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 401053002768 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 401053002769 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 401053002770 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 401053002771 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 401053002772 Protein of unknown function (DUF770); Region: DUF770; cl01402 401053002773 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 401053002774 Protein of unknown function (DUF877); Region: DUF877; pfam05943 401053002775 Protein of unknown function (DUF796); Region: DUF796; cl01226 401053002776 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 401053002777 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 401053002778 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 401053002779 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 401053002780 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 401053002781 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 401053002782 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 401053002783 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 401053002784 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 401053002785 Walker A motif; other site 401053002786 ATP binding site [chemical binding]; other site 401053002787 Walker B motif; other site 401053002788 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 401053002789 active site 401053002790 substrate binding site [chemical binding]; other site 401053002791 arginine finger; other site 401053002792 cosubstrate binding site; other site 401053002793 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 401053002794 Walker A motif; other site 401053002795 ATP binding site [chemical binding]; other site 401053002796 Walker B motif; other site 401053002797 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 401053002798 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 401053002799 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 401053002800 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 401053002801 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 401053002802 NAD(P) binding site [chemical binding]; other site 401053002803 active site 401053002804 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 401053002805 dimerization interface [polypeptide binding]; other site 401053002806 putative DNA binding site [nucleotide binding]; other site 401053002807 putative Zn2+ binding site [ion binding]; other site 401053002808 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002809 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053002810 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 401053002811 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 401053002812 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053002813 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 401053002814 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 401053002815 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053002816 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053002817 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053002818 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002819 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053002820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 401053002821 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 401053002822 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053002823 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053002824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 401053002825 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; cd00995 401053002826 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 401053002827 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 401053002828 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 401053002829 MutS domain I; Region: MutS_I; pfam01624 401053002830 MutS domain II; Region: MutS_II; pfam05188 401053002831 MutS family domain IV; Region: MutS_IV; pfam05190 401053002832 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 401053002833 Walker A/P-loop; other site 401053002834 ATP binding site [chemical binding]; other site 401053002835 Q-loop/lid; other site 401053002836 ABC transporter signature motif; other site 401053002837 Walker B; other site 401053002838 D-loop; other site 401053002839 H-loop/switch region; other site 401053002840 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053002841 glycosyltransferase, MGT family; Region: MGT; TIGR01426 401053002842 active site 401053002843 TDP-binding site; other site 401053002844 acceptor substrate-binding pocket; other site 401053002845 homodimer interface [polypeptide binding]; other site 401053002846 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053002847 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053002848 active site 401053002849 TDP-binding site; other site 401053002850 acceptor substrate-binding pocket; other site 401053002851 homodimer interface [polypeptide binding]; other site 401053002852 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053002853 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053002854 active site 401053002855 TDP-binding site; other site 401053002856 acceptor substrate-binding pocket; other site 401053002857 homodimer interface [polypeptide binding]; other site 401053002858 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 401053002859 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 401053002860 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 401053002861 tRNA; other site 401053002862 putative tRNA binding site [nucleotide binding]; other site 401053002863 putative NADP binding site [chemical binding]; other site 401053002864 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 401053002865 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 401053002866 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; cl03189 401053002867 domain interfaces; other site 401053002868 active site 401053002869 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 401053002870 active site 401053002871 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 401053002872 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 401053002873 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 401053002874 minor groove reading motif; other site 401053002875 helix-hairpin-helix signature motif; other site 401053002876 substrate binding pocket [chemical binding]; other site 401053002877 active site 401053002878 Chlorite dismutase; Region: Chlor_dismutase; cl01280 401053002879 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 401053002880 Predicted permease; Region: DUF318; pfam03773 401053002881 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 401053002882 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 401053002883 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 401053002884 ligand binding site [chemical binding]; other site 401053002885 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 401053002886 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 401053002887 Flagellar protein (FlbD); Region: FlbD; cl00683 401053002888 flagellin; Reviewed; Region: PRK08869 401053002889 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 401053002890 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 401053002891 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 401053002892 FAD binding pocket [chemical binding]; other site 401053002893 FAD binding motif [chemical binding]; other site 401053002894 catalytic residues [active] 401053002895 NAD binding pocket [chemical binding]; other site 401053002896 phosphate binding motif [ion binding]; other site 401053002897 beta-alpha-beta structure motif; other site 401053002898 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 401053002899 ligand binding site [chemical binding]; other site 401053002900 flexible hinge region; other site 401053002901 sensory histidine kinase AtoS; Provisional; Region: PRK11360 401053002902 sensory histidine kinase AtoS; Provisional; Region: PRK11360 401053002903 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 401053002904 ATP binding site [chemical binding]; other site 401053002905 Mg2+ binding site [ion binding]; other site 401053002906 G-X-G motif; other site 401053002907 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 401053002908 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 401053002909 putative NAD(P) binding site [chemical binding]; other site 401053002910 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 401053002911 ketol-acid reductoisomerase; Provisional; Region: PRK05479 401053002912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053002913 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 401053002914 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 401053002915 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 401053002916 putative valine binding site [chemical binding]; other site 401053002917 dimer interface [polypeptide binding]; other site 401053002918 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 401053002919 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 401053002920 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 401053002921 PYR/PP interface [polypeptide binding]; other site 401053002922 dimer interface [polypeptide binding]; other site 401053002923 TPP binding site [chemical binding]; other site 401053002924 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 401053002925 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 401053002926 TPP-binding site [chemical binding]; other site 401053002927 dimer interface [polypeptide binding]; other site 401053002928 Dehydratase family; Region: ILVD_EDD; cl00340 401053002929 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 401053002930 substrate binding site [chemical binding]; other site 401053002931 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 401053002932 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 401053002933 substrate binding site [chemical binding]; other site 401053002934 ligand binding site [chemical binding]; other site 401053002935 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 401053002936 tartrate dehydrogenase; Provisional; Region: PRK08194 401053002937 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 401053002938 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 401053002939 active site 401053002940 catalytic residues [active] 401053002941 metal binding site [ion binding]; metal-binding site 401053002942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 401053002943 Helix-turn-helix domains; Region: HTH; cl00088 401053002944 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 401053002945 dimerization interface [polypeptide binding]; other site 401053002946 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 401053002947 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 401053002948 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053002949 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 401053002950 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 401053002951 NAD binding site [chemical binding]; other site 401053002952 homodimer interface [polypeptide binding]; other site 401053002953 active site 401053002954 substrate binding site [chemical binding]; other site 401053002955 Protein of unknown function (DUF421); Region: DUF421; cl00990 401053002956 acetyl-CoA synthetase; Provisional; Region: PRK00174 401053002957 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 401053002958 AMP-binding enzyme; Region: AMP-binding; cl15778 401053002959 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 401053002960 GAF domain; Region: GAF; cl15785 401053002961 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 401053002962 PAS domain; Region: PAS_9; pfam13426 401053002963 putative active site [active] 401053002964 heme pocket [chemical binding]; other site 401053002965 PAS domain S-box; Region: sensory_box; TIGR00229 401053002966 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 401053002967 putative active site [active] 401053002968 heme pocket [chemical binding]; other site 401053002969 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 401053002970 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 401053002971 putative active site [active] 401053002972 heme pocket [chemical binding]; other site 401053002973 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 401053002974 dimer interface [polypeptide binding]; other site 401053002975 phosphorylation site [posttranslational modification] 401053002976 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 401053002977 ATP binding site [chemical binding]; other site 401053002978 Mg2+ binding site [ion binding]; other site 401053002979 G-X-G motif; other site 401053002980 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 401053002981 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 401053002982 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 401053002983 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 401053002984 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 401053002985 TPP-binding site; other site 401053002986 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 401053002987 PYR/PP interface [polypeptide binding]; other site 401053002988 dimer interface [polypeptide binding]; other site 401053002989 TPP binding site [chemical binding]; other site 401053002990 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 401053002991 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 401053002992 putative hydrophobic ligand binding site [chemical binding]; other site 401053002993 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 401053002994 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 401053002995 N-terminal plug; other site 401053002996 ligand-binding site [chemical binding]; other site 401053002997 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 401053002998 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 401053002999 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 401053003000 cell division protein MraZ; Reviewed; Region: PRK00326 401053003001 MraZ protein; Region: MraZ; pfam02381 401053003002 MraZ protein; Region: MraZ; pfam02381 401053003003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003004 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 401053003005 Septum formation initiator; Region: DivIC; cl11433 401053003006 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 401053003007 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 401053003008 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053003009 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 401053003010 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 401053003011 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 401053003012 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 401053003013 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 401053003014 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 401053003015 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 401053003016 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 401053003017 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 401053003018 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 401053003019 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 401053003020 Surface antigen; Region: Bac_surface_Ag; cl03097 401053003021 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 401053003022 SurA N-terminal domain; Region: SurA_N_3; cl07813 401053003023 AsmA-like C-terminal region; Region: AsmA_2; cl15864 401053003024 AsmA-like C-terminal region; Region: AsmA_2; cl15864 401053003025 Family of unknown function (DUF490); Region: DUF490; pfam04357 401053003026 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 401053003027 BON domain; Region: BON; cl02771 401053003028 BON domain; Region: BON; cl02771 401053003029 BON domain; Region: BON; cl02771 401053003030 UbiA prenyltransferase family; Region: UbiA; cl00337 401053003031 CsbD-like; Region: CsbD; cl15799 401053003032 Peptidase family M48; Region: Peptidase_M48; cl12018 401053003033 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 401053003034 Prephenate dehydratase; Region: PDT; pfam00800 401053003035 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 401053003036 putative L-Phe binding site [chemical binding]; other site 401053003037 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 401053003038 Found in ATP-dependent protease La (LON); Region: LON; smart00464 401053003039 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 401053003040 Walker A motif; other site 401053003041 ATP binding site [chemical binding]; other site 401053003042 Walker B motif; other site 401053003043 arginine finger; other site 401053003044 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 401053003045 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 401053003046 MoaE interaction surface [polypeptide binding]; other site 401053003047 MoeB interaction surface [polypeptide binding]; other site 401053003048 thiocarboxylated glycine; other site 401053003049 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 401053003050 MoaE homodimer interface [polypeptide binding]; other site 401053003051 MoaD interaction [polypeptide binding]; other site 401053003052 active site residues [active] 401053003053 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053003054 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 401053003055 metal ion-dependent adhesion site (MIDAS); other site 401053003056 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 401053003057 active site 401053003058 dimerization interface [polypeptide binding]; other site 401053003059 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 401053003060 4Fe-4S binding domain; Region: Fer4; cl02805 401053003061 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 401053003062 Recombination protein O N terminal; Region: RecO_N; cl15812 401053003063 Recombination protein O C terminal; Region: RecO_C; pfam02565 401053003064 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 401053003065 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 401053003066 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 401053003067 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 401053003068 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 401053003069 Walker A motif; other site 401053003070 ATP binding site [chemical binding]; other site 401053003071 Walker B motif; other site 401053003072 arginine finger; other site 401053003073 Helix-turn-helix domains; Region: HTH; cl00088 401053003074 Disulphide isomerase; Region: Disulph_isomer; pfam06491 401053003075 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 401053003076 FAD binding domain; Region: FAD_binding_4; pfam01565 401053003077 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 401053003078 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 401053003079 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053003080 Walker A/P-loop; other site 401053003081 ATP binding site [chemical binding]; other site 401053003082 Q-loop/lid; other site 401053003083 ABC transporter signature motif; other site 401053003084 Walker B; other site 401053003085 D-loop; other site 401053003086 H-loop/switch region; other site 401053003087 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 401053003088 dimer interface [polypeptide binding]; other site 401053003089 conserved gate region; other site 401053003090 putative PBP binding loops; other site 401053003091 ABC-ATPase subunit interface; other site 401053003092 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 401053003093 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 401053003094 threonine synthase; Validated; Region: PRK06260 401053003095 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 401053003096 homodimer interface [polypeptide binding]; other site 401053003097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053003098 catalytic residue [active] 401053003099 homoserine kinase; Provisional; Region: PRK01212 401053003100 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 401053003101 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 401053003102 dimer interface [polypeptide binding]; other site 401053003103 conserved gate region; other site 401053003104 putative PBP binding loops; other site 401053003105 ABC-ATPase subunit interface; other site 401053003106 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; cl04270 401053003107 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 401053003108 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 401053003109 Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an...; Region: Fascin; cl00187 401053003110 PKC phosphorylation site [posttranslational modification]; other site 401053003111 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 401053003112 Glyco_18 domain; Region: Glyco_18; smart00636 401053003113 putative active site [active] 401053003114 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 401053003115 PQQ-like domain; Region: PQQ_2; pfam13360 401053003116 PQQ-like domain; Region: PQQ_2; pfam13360 401053003117 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 401053003118 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 401053003119 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 401053003120 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 401053003121 active site 401053003122 catalytic tetrad [active] 401053003123 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 401053003124 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 401053003125 DNA binding residues [nucleotide binding] 401053003126 dimer interface [polypeptide binding]; other site 401053003127 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 401053003128 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053003129 choline dehydrogenase; Validated; Region: PRK02106 401053003130 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 401053003131 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053003132 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 401053003133 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 401053003134 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 401053003135 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 401053003136 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 401053003137 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 401053003138 ligand binding site [chemical binding]; other site 401053003139 flexible hinge region; other site 401053003140 Helix-turn-helix domains; Region: HTH; cl00088 401053003141 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 401053003142 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 401053003143 NAD binding site [chemical binding]; other site 401053003144 substrate binding site [chemical binding]; other site 401053003145 catalytic Zn binding site [ion binding]; other site 401053003146 tetramer interface [polypeptide binding]; other site 401053003147 structural Zn binding site [ion binding]; other site 401053003148 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 401053003149 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 401053003150 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 401053003151 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 401053003152 Cytochrome c; Region: Cytochrom_C; cl11414 401053003153 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 401053003154 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 401053003155 iron-sulfur cluster [ion binding]; other site 401053003156 [2Fe-2S] cluster binding site [ion binding]; other site 401053003157 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 401053003158 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 401053003159 Qi binding site; other site 401053003160 intrachain domain interface; other site 401053003161 interchain domain interface [polypeptide binding]; other site 401053003162 heme bH binding site [chemical binding]; other site 401053003163 heme bL binding site [chemical binding]; other site 401053003164 Qo binding site; other site 401053003165 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 401053003166 Cytochrome c; Region: Cytochrom_C; cl11414 401053003167 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 401053003168 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 401053003169 NAD(P) binding site [chemical binding]; other site 401053003170 catalytic residues [active] 401053003171 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053003172 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 401053003173 active site 401053003174 phosphorylation site [posttranslational modification] 401053003175 intermolecular recognition site; other site 401053003176 dimerization interface [polypeptide binding]; other site 401053003177 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 401053003178 DNA binding residues [nucleotide binding] 401053003179 dimerization interface [polypeptide binding]; other site 401053003180 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 401053003181 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 401053003182 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 401053003183 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 401053003184 ATP binding site [chemical binding]; other site 401053003185 Mg2+ binding site [ion binding]; other site 401053003186 G-X-G motif; other site 401053003187 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 401053003188 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 401053003189 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; cl00470 401053003190 Bacterial Ig-like domain; Region: Big_5; cl01012 401053003191 Bacterial Ig-like domain; Region: Big_5; cl01012 401053003192 Bacterial Ig-like domain; Region: Big_5; cl01012 401053003193 Bacterial Ig-like domain; Region: Big_5; cl01012 401053003194 Bacterial Ig-like domain; Region: Big_5; cl01012 401053003195 Bacterial Ig-like domain; Region: Big_5; cl01012 401053003196 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 401053003197 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 401053003198 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 401053003199 ligand binding site [chemical binding]; other site 401053003200 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 401053003201 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 401053003202 ligand binding site [chemical binding]; other site 401053003203 flexible hinge region; other site 401053003204 Helix-turn-helix domains; Region: HTH; cl00088 401053003205 MatE; Region: MatE; cl10513 401053003206 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 401053003207 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_14; cd04672 401053003208 nudix motif; other site 401053003209 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 401053003210 putative trimer interface [polypeptide binding]; other site 401053003211 putative CoA binding site [chemical binding]; other site 401053003212 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 401053003213 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 401053003214 inhibitor-cofactor binding pocket; inhibition site 401053003215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053003216 catalytic residue [active] 401053003217 Cupin domain; Region: Cupin_2; cl09118 401053003218 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 401053003219 active site 401053003220 NAD binding site [chemical binding]; other site 401053003221 metal binding site [ion binding]; metal-binding site 401053003222 N-acetylmannosamine kinase; Provisional; Region: PRK05082 401053003223 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053003224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003225 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 401053003226 NAD(P) binding site [chemical binding]; other site 401053003227 LDH/MDH dimer interface [polypeptide binding]; other site 401053003228 substrate binding site [chemical binding]; other site 401053003229 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053003230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003231 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 401053003232 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 401053003233 active site 401053003234 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053003235 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 401053003236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003237 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 401053003238 NAD(P) binding site [chemical binding]; other site 401053003239 active site 401053003240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003241 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 401053003242 NAD(P) binding site [chemical binding]; other site 401053003243 active site 401053003244 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 401053003245 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 401053003246 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 401053003247 Histidine kinase; Region: HisKA_3; pfam07730 401053003248 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053003249 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 401053003250 active site 401053003251 phosphorylation site [posttranslational modification] 401053003252 intermolecular recognition site; other site 401053003253 dimerization interface [polypeptide binding]; other site 401053003254 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 401053003255 DNA binding residues [nucleotide binding] 401053003256 dimerization interface [polypeptide binding]; other site 401053003257 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 401053003258 Beta-galactosidase, domain 2; Region: BetaGal_dom2; cl11086 401053003259 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053003260 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 401053003261 Cupin domain; Region: Cupin_2; cl09118 401053003262 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 401053003263 Sulfatase; Region: Sulfatase; cl10460 401053003264 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 401053003265 Pex19 protein family; Region: Pex19; pfam04614 401053003266 PPIC-type PPIASE domain; Region: Rotamase; cl08278 401053003267 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 401053003268 Mitochondrial inner membrane protein; Region: Mitofilin; pfam09731 401053003269 Mechanosensitive ion channel; Region: MS_channel; pfam00924 401053003270 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 401053003271 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 401053003272 glutamine binding [chemical binding]; other site 401053003273 catalytic triad [active] 401053003274 elongation factor P; Validated; Region: PRK00529 401053003275 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 401053003276 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 401053003277 RNA binding site [nucleotide binding]; other site 401053003278 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 401053003279 RNA binding site [nucleotide binding]; other site 401053003280 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053003281 Acylphosphatase; Region: Acylphosphatase; cl00551 401053003282 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 401053003283 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 401053003284 active site 401053003285 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 401053003286 probable cinnamyl alcohol dehydrogenase; Region: PLN02586 401053003287 putative NAD(P) binding site [chemical binding]; other site 401053003288 putative substrate binding site [chemical binding]; other site 401053003289 catalytic Zn binding site [ion binding]; other site 401053003290 structural Zn binding site [ion binding]; other site 401053003291 dimer interface [polypeptide binding]; other site 401053003292 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 401053003293 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 401053003294 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 401053003295 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 401053003296 generic binding surface II; other site 401053003297 generic binding surface I; other site 401053003298 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 401053003299 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 401053003300 active site 401053003301 substrate binding site [chemical binding]; other site 401053003302 metal binding site [ion binding]; metal-binding site 401053003303 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 401053003304 RNA binding surface [nucleotide binding]; other site 401053003305 DsrE/DsrF-like family; Region: DrsE; cl00672 401053003306 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 401053003307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053003308 metal binding site [ion binding]; metal-binding site 401053003309 active site 401053003310 I-site; other site 401053003311 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053003312 5'-3' exonuclease; Region: 53EXOc; smart00475 401053003313 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 401053003314 active site 401053003315 metal binding site 1 [ion binding]; metal-binding site 401053003316 putative 5' ssDNA interaction site; other site 401053003317 metal binding site 3; metal-binding site 401053003318 metal binding site 2 [ion binding]; metal-binding site 401053003319 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 401053003320 putative DNA binding site [nucleotide binding]; other site 401053003321 putative metal binding site [ion binding]; other site 401053003322 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 401053003323 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 401053003324 active site 401053003325 DNA binding site [nucleotide binding] 401053003326 catalytic site [active] 401053003327 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053003328 metal binding site [ion binding]; metal-binding site 401053003329 active site 401053003330 I-site; other site 401053003331 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 401053003332 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 401053003333 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 401053003334 putative acyl-acceptor binding pocket; other site 401053003335 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053003336 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003337 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003338 FtsX-like permease family; Region: FtsX; cl15850 401053003339 Helix-turn-helix domains; Region: HTH; cl00088 401053003340 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 401053003341 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 401053003342 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 401053003343 NAD(P) binding site [chemical binding]; other site 401053003344 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 401053003345 active site 401053003346 Sulfatase; Region: Sulfatase; cl10460 401053003347 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 401053003348 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 401053003349 Predicted membrane protein [Function unknown]; Region: COG2860 401053003350 UPF0126 domain; Region: UPF0126; pfam03458 401053003351 Protein of unknown function, DUF481; Region: DUF481; cl01213 401053003352 Cytochrome c; Region: Cytochrom_C; cl11414 401053003353 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 401053003354 Aspartase; Region: Aspartase; cd01357 401053003355 active sites [active] 401053003356 tetramer interface [polypeptide binding]; other site 401053003357 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 401053003358 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 401053003359 Fumarase C-terminus; Region: Fumerase_C; cl00795 401053003360 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 401053003361 putative FMN binding site [chemical binding]; other site 401053003362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003363 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 401053003364 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053003365 sensory histidine kinase AtoS; Provisional; Region: PRK11360 401053003366 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 401053003367 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 401053003368 phosphorylation site [posttranslational modification] 401053003369 dimer interface [polypeptide binding]; other site 401053003370 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 401053003371 ATP binding site [chemical binding]; other site 401053003372 Mg2+ binding site [ion binding]; other site 401053003373 G-X-G motif; other site 401053003374 ABC-2 type transporter; Region: ABC2_membrane; cl11417 401053003375 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053003376 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 401053003377 Walker A/P-loop; other site 401053003378 ATP binding site [chemical binding]; other site 401053003379 Q-loop/lid; other site 401053003380 ABC transporter signature motif; other site 401053003381 Walker B; other site 401053003382 D-loop; other site 401053003383 H-loop/switch region; other site 401053003384 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053003385 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 401053003386 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 401053003387 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 401053003388 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053003389 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 401053003390 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 401053003391 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 401053003392 motif 1; other site 401053003393 dimer interface [polypeptide binding]; other site 401053003394 active site 401053003395 motif 2; other site 401053003396 motif 3; other site 401053003397 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 401053003398 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 401053003399 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 401053003400 OstA-like protein; Region: OstA; cl00844 401053003401 OstA-like protein; Region: OstA; cl00844 401053003402 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 401053003403 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 401053003404 Walker A/P-loop; other site 401053003405 ATP binding site [chemical binding]; other site 401053003406 Q-loop/lid; other site 401053003407 ABC transporter signature motif; other site 401053003408 Walker B; other site 401053003409 D-loop; other site 401053003410 H-loop/switch region; other site 401053003411 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 401053003412 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 401053003413 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 401053003414 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 401053003415 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 401053003416 30S subunit binding site; other site 401053003417 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 401053003418 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 401053003419 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 401053003420 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 401053003421 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 401053003422 Walker A/P-loop; other site 401053003423 ATP binding site [chemical binding]; other site 401053003424 Q-loop/lid; other site 401053003425 ABC transporter signature motif; other site 401053003426 Walker B; other site 401053003427 D-loop; other site 401053003428 H-loop/switch region; other site 401053003429 hypothetical protein; Provisional; Region: PRK11820 401053003430 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 401053003431 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 401053003432 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 401053003433 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 401053003434 catalytic site [active] 401053003435 G-X2-G-X-G-K; other site 401053003436 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 401053003437 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 401053003438 Fe-S cluster binding site [ion binding]; other site 401053003439 active site 401053003440 primosome assembly protein PriA; Validated; Region: PRK05580 401053003441 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 401053003442 primosome assembly protein PriA; Validated; Region: PRK05580 401053003443 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 401053003444 ATP binding site [chemical binding]; other site 401053003445 putative Mg++ binding site [ion binding]; other site 401053003446 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053003447 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 401053003448 IHF - DNA interface [nucleotide binding]; other site 401053003449 IHF dimer interface [polypeptide binding]; other site 401053003450 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 401053003451 trimer interface [polypeptide binding]; other site 401053003452 active site 401053003453 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053003454 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 401053003455 DNA binding residues [nucleotide binding] 401053003456 dimerization interface [polypeptide binding]; other site 401053003457 Family of unknown function (DUF500); Region: DUF500; cl01109 401053003458 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 401053003459 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 401053003460 putative acyl-acceptor binding pocket; other site 401053003461 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 401053003462 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 401053003463 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 401053003464 trimer interface [polypeptide binding]; other site 401053003465 active site 401053003466 UDP-GlcNAc binding site [chemical binding]; other site 401053003467 lipid binding site [chemical binding]; lipid-binding site 401053003468 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 401053003469 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 401053003470 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 401053003471 FAD binding site [chemical binding]; other site 401053003472 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 401053003473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053003474 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 401053003475 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 401053003476 substrate binding pocket [chemical binding]; other site 401053003477 chain length determination region; other site 401053003478 substrate-Mg2+ binding site; other site 401053003479 catalytic residues [active] 401053003480 aspartate-rich region 1; other site 401053003481 active site lid residues [active] 401053003482 aspartate-rich region 2; other site 401053003483 Protein of unknown function (DUF520); Region: DUF520; cl00723 401053003484 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 401053003485 active site 401053003486 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 401053003487 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 401053003488 active site 401053003489 HIGH motif; other site 401053003490 KMSKS motif; other site 401053003491 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 401053003492 tRNA binding surface [nucleotide binding]; other site 401053003493 anticodon binding site; other site 401053003494 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 401053003495 dimer interface [polypeptide binding]; other site 401053003496 putative tRNA-binding site [nucleotide binding]; other site 401053003497 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 401053003498 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 401053003499 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 401053003500 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 401053003501 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 401053003502 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 401053003503 FeS/SAM binding site; other site 401053003504 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 401053003505 putative substrate translocation pore; other site 401053003506 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 401053003507 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 401053003508 NADP binding site [chemical binding]; other site 401053003509 homopentamer interface [polypeptide binding]; other site 401053003510 substrate binding site [chemical binding]; other site 401053003511 active site 401053003512 fructokinase; Reviewed; Region: PRK09557 401053003513 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053003514 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 401053003515 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 401053003516 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 401053003517 Substrate binding site; other site 401053003518 Mg++ binding site; other site 401053003519 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 401053003520 active site 401053003521 substrate binding site [chemical binding]; other site 401053003522 CoA binding site [chemical binding]; other site 401053003523 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 401053003524 peptidase domain interface [polypeptide binding]; other site 401053003525 polyphosphate kinase; Provisional; Region: PRK05443 401053003526 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 401053003527 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 401053003528 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 401053003529 putative active site [active] 401053003530 catalytic site [active] 401053003531 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 401053003532 putative domain interface [polypeptide binding]; other site 401053003533 putative active site [active] 401053003534 catalytic site [active] 401053003535 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 401053003536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003537 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 401053003538 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 401053003539 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 401053003540 hinge; other site 401053003541 active site 401053003542 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 401053003543 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 401053003544 putative active site [active] 401053003545 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053003546 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 401053003547 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 401053003548 Catalytic site [active] 401053003549 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 401053003550 substrate binding site [chemical binding]; other site 401053003551 dimer interface [polypeptide binding]; other site 401053003552 catalytic triad [active] 401053003553 Phosphoglycerate kinase; Region: PGK; pfam00162 401053003554 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; cd00318 401053003555 substrate binding site [chemical binding]; other site 401053003556 hinge regions; other site 401053003557 ADP binding site [chemical binding]; other site 401053003558 catalytic site [active] 401053003559 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_6; cd06154 401053003560 homotrimer interaction site [polypeptide binding]; other site 401053003561 putative active site [active] 401053003562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003563 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 401053003564 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 401053003565 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053003566 AAA domain; Region: AAA_33; pfam13671 401053003567 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053003568 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053003569 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 401053003570 Walker A/P-loop; other site 401053003571 ATP binding site [chemical binding]; other site 401053003572 Q-loop/lid; other site 401053003573 ABC transporter signature motif; other site 401053003574 Walker B; other site 401053003575 D-loop; other site 401053003576 H-loop/switch region; other site 401053003577 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 401053003578 NMT1-like family; Region: NMT1_2; cl15260 401053003579 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 401053003580 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 401053003581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 401053003582 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 401053003583 ApbE family; Region: ApbE; cl00643 401053003584 FlgD Ig-like domain; Region: FlgD_ig; cl15790 401053003585 EF-hand domain pair; Region: EF_hand_5; pfam13499 401053003586 EF-hand domain pair; Region: EF_hand_5; pfam13499 401053003587 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 401053003588 Ca2+ binding site [ion binding]; other site 401053003589 EF-hand domain pair; Region: EF_hand_5; pfam13499 401053003590 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; cl08302 401053003591 Ca2+ binding site [ion binding]; other site 401053003592 EF-hand domain pair; Region: EF_hand_5; pfam13499 401053003593 SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate...; Region: SPARC_EC; cd00252 401053003594 EF-hand Ca2+ binding loops [ion binding]; other site 401053003595 FS-domain interface [polypeptide binding]; other site 401053003596 putative K+ binding site [ion binding]; other site 401053003597 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; cl08302 401053003598 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 401053003599 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 401053003600 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 401053003601 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053003602 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 401053003603 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; cl02529 401053003604 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 401053003605 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 401053003606 active site residue [active] 401053003607 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053003608 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003609 FtsX-like permease family; Region: FtsX; cl15850 401053003610 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003611 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 401053003612 Helix-turn-helix domains; Region: HTH; cl00088 401053003613 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 401053003614 Helix-turn-helix domains; Region: HTH; cl00088 401053003615 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 401053003616 FeS/SAM binding site; other site 401053003617 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 401053003618 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 401053003619 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 401053003620 THF binding site; other site 401053003621 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 401053003622 substrate binding site [chemical binding]; other site 401053003623 THF binding site; other site 401053003624 zinc-binding site [ion binding]; other site 401053003625 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 401053003626 S-adenosylmethionine binding site [chemical binding]; other site 401053003627 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 401053003628 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 401053003629 active site 401053003630 catalytic triad [active] 401053003631 calcium binding site [ion binding]; other site 401053003632 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 401053003633 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 401053003634 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 401053003635 catalytic residue [active] 401053003636 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 401053003637 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 401053003638 D-pathway; other site 401053003639 Low-spin heme binding site [chemical binding]; other site 401053003640 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 401053003641 Putative water exit pathway; other site 401053003642 Binuclear center (active site) [active] 401053003643 K-pathway; other site 401053003644 Putative proton exit pathway; other site 401053003645 Cupin domain; Region: Cupin_2; cl09118 401053003646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053003647 Helix-turn-helix domain; Region: HTH_18; pfam12833 401053003648 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 401053003649 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 401053003650 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 401053003651 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 401053003652 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 401053003653 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 401053003654 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 401053003655 putative substrate binding pocket [chemical binding]; other site 401053003656 dimer interface [polypeptide binding]; other site 401053003657 phosphate binding site [ion binding]; other site 401053003658 Tetratricopeptide repeat; Region: TPR_16; pfam13432 401053003659 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 401053003660 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 401053003661 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 401053003662 putative ribose interaction site [chemical binding]; other site 401053003663 putative ADP binding site [chemical binding]; other site 401053003664 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 401053003665 active site 401053003666 HIGH motif; other site 401053003667 nucleotide binding site [chemical binding]; other site 401053003668 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 401053003669 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 401053003670 P-loop; other site 401053003671 Magnesium ion binding site [ion binding]; other site 401053003672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053003673 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 401053003674 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 401053003675 DXD motif; other site 401053003676 PilZ domain; Region: PilZ; cl01260 401053003677 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 401053003678 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 401053003679 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 401053003680 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 401053003681 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 401053003682 binding surface 401053003683 TPR motif; other site 401053003684 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 401053003685 TPR motif; other site 401053003686 binding surface 401053003687 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 401053003688 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 401053003689 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 401053003690 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 401053003691 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 401053003692 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 401053003693 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 401053003694 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 401053003695 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 401053003696 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 401053003697 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 401053003698 active site 401053003699 HIGH motif; other site 401053003700 nucleotide binding site [chemical binding]; other site 401053003701 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 401053003702 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 401053003703 tRNA binding surface [nucleotide binding]; other site 401053003704 anticodon binding site; other site 401053003705 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 401053003706 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 401053003707 interface (dimer of trimers) [polypeptide binding]; other site 401053003708 Substrate-binding/catalytic site; other site 401053003709 Zn-binding sites [ion binding]; other site 401053003710 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 401053003711 SmpB-tmRNA interface; other site 401053003712 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 401053003713 TPR repeat; Region: TPR_11; pfam13414 401053003714 binding surface 401053003715 TPR motif; other site 401053003716 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 401053003717 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 401053003718 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 401053003719 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 401053003720 dockerin binding interface; other site 401053003721 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 401053003722 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 401053003723 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 401053003724 Urocanase; Region: Urocanase; pfam01175 401053003725 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 401053003726 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 401053003727 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 401053003728 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 401053003729 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 401053003730 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 401053003731 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 401053003732 active site 401053003733 octamer interface [polypeptide binding]; other site 401053003734 Amino acid permease; Region: AA_permease_2; pfam13520 401053003735 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 401053003736 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 401053003737 putative active site [active] 401053003738 catalytic triad [active] 401053003739 putative dimer interface [polypeptide binding]; other site 401053003740 peptide chain release factor 2; Validated; Region: prfB; PRK00578 401053003741 RF-1 domain; Region: RF-1; cl02875 401053003742 RF-1 domain; Region: RF-1; cl02875 401053003743 DinB superfamily; Region: DinB_2; pfam12867 401053003744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003745 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 401053003746 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 401053003747 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 401053003748 DsbD alpha interface [polypeptide binding]; other site 401053003749 catalytic residues [active] 401053003750 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 401053003751 recombination factor protein RarA; Reviewed; Region: PRK13342 401053003752 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 401053003753 Walker A motif; other site 401053003754 ATP binding site [chemical binding]; other site 401053003755 Walker B motif; other site 401053003756 arginine finger; other site 401053003757 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 401053003758 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 401053003759 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 401053003760 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 401053003761 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 401053003762 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 401053003763 putative active site [active] 401053003764 putative anti-sigmaE protein; Provisional; Region: PRK13920 401053003765 Anti-sigma-K factor rskA; Region: RskA; pfam10099 401053003766 RNA polymerase sigma factor; Provisional; Region: PRK11924 401053003767 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053003768 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 401053003769 DNA binding residues [nucleotide binding] 401053003770 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 401053003771 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 401053003772 RNA binding surface [nucleotide binding]; other site 401053003773 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; cl15754 401053003774 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 401053003775 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 401053003776 Helix-turn-helix domains; Region: HTH; cl00088 401053003777 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053003778 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003779 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003780 FtsX-like permease family; Region: FtsX; cl15850 401053003781 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 401053003782 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 401053003783 active site 401053003784 catalytic residues [active] 401053003785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003786 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053003787 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 401053003788 A functionally uncharacterized subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the chitobiase of Serratia marcescens, a beta-N-1,4-acetylhexosaminidase that hydrolyzes the beta-1,4-glycosidic linkages in...; Region: GH20_chitobiase-like_1; cd06570 401053003789 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 401053003790 active site 401053003791 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 401053003792 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 401053003793 DNA-binding site [nucleotide binding]; DNA binding site 401053003794 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 401053003795 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 401053003796 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 401053003797 substrate binding site [chemical binding]; other site 401053003798 ATP binding site [chemical binding]; other site 401053003799 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 401053003800 Domain of unknown function (DUF386); Region: DUF386; cl01047 401053003801 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 401053003802 dimer interface [polypeptide binding]; other site 401053003803 active site 401053003804 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 401053003805 dimer interface [polypeptide binding]; other site 401053003806 active site 401053003807 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 401053003808 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 401053003809 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 401053003810 putative substrate translocation pore; other site 401053003811 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 401053003812 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 401053003813 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 401053003814 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 401053003815 Helix-turn-helix domains; Region: HTH; cl00088 401053003816 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053003817 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003818 FtsX-like permease family; Region: FtsX; cl15850 401053003819 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003820 FtsX-like permease family; Region: FtsX; cl15850 401053003821 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 401053003822 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 401053003823 Walker A/P-loop; other site 401053003824 ATP binding site [chemical binding]; other site 401053003825 Q-loop/lid; other site 401053003826 ABC transporter signature motif; other site 401053003827 Walker B; other site 401053003828 D-loop; other site 401053003829 H-loop/switch region; other site 401053003830 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003831 FtsX-like permease family; Region: FtsX; cl15850 401053003832 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003833 FtsX-like permease family; Region: FtsX; cl15850 401053003834 Iron permease FTR1 family; Region: FTR1; cl00475 401053003835 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 401053003836 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053003837 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; cl00284 401053003838 Helix-turn-helix domains; Region: HTH; cl00088 401053003839 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 401053003840 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 401053003841 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 401053003842 galactokinase; Provisional; Region: PRK05101 401053003843 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 401053003844 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 401053003845 dimer interface [polypeptide binding]; other site 401053003846 active site 401053003847 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 401053003848 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 401053003849 Cysteine-rich domain; Region: CCG; pfam02754 401053003850 Cysteine-rich domain; Region: CCG; pfam02754 401053003851 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 401053003852 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 401053003853 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 401053003854 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 401053003855 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 401053003856 non-specific DNA binding site [nucleotide binding]; other site 401053003857 salt bridge; other site 401053003858 sequence-specific DNA binding site [nucleotide binding]; other site 401053003859 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 401053003860 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 401053003861 Helix-turn-helix domains; Region: HTH; cl00088 401053003862 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 401053003863 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 401053003864 ligand binding site [chemical binding]; other site 401053003865 short chain dehydrogenase; Validated; Region: PRK08324 401053003866 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 401053003867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003868 NAD(P) binding site [chemical binding]; other site 401053003869 active site 401053003870 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 401053003871 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 401053003872 N- and C-terminal domain interface [polypeptide binding]; other site 401053003873 active site 401053003874 MgATP binding site [chemical binding]; other site 401053003875 catalytic site [active] 401053003876 metal binding site [ion binding]; metal-binding site 401053003877 carbohydrate binding site [chemical binding]; other site 401053003878 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 401053003879 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 401053003880 NAD binding site [chemical binding]; other site 401053003881 homotetramer interface [polypeptide binding]; other site 401053003882 homodimer interface [polypeptide binding]; other site 401053003883 substrate binding site [chemical binding]; other site 401053003884 active site 401053003885 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 401053003886 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 401053003887 substrate binding site; other site 401053003888 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 401053003889 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 401053003890 inhibitor-cofactor binding pocket; inhibition site 401053003891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053003892 catalytic residue [active] 401053003893 classical (c) SDRs; Region: SDR_c; cd05233 401053003894 NAD(P) binding site [chemical binding]; other site 401053003895 active site 401053003896 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 401053003897 active site 401053003898 NAD binding site [chemical binding]; other site 401053003899 metal binding site [ion binding]; metal-binding site 401053003900 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 401053003901 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 401053003902 PYR/PP interface [polypeptide binding]; other site 401053003903 dimer interface [polypeptide binding]; other site 401053003904 TPP binding site [chemical binding]; other site 401053003905 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 401053003906 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 401053003907 TPP-binding site [chemical binding]; other site 401053003908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053003909 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053003910 NAD(P) binding site [chemical binding]; other site 401053003911 active site 401053003912 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 401053003913 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 401053003914 Ligand binding site; other site 401053003915 Putative Catalytic site; other site 401053003916 DXD motif; other site 401053003917 GtrA-like protein; Region: GtrA; cl00971 401053003918 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 401053003919 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 401053003920 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053003921 FtsX-like permease family; Region: FtsX; cl15850 401053003922 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053003923 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 401053003924 metal ion-dependent adhesion site (MIDAS); other site 401053003925 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 401053003926 Peptidase family M48; Region: Peptidase_M48; cl12018 401053003927 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053003928 Cytochrome C biogenesis protein; Region: CcmH; cl01179 401053003929 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 401053003930 Response regulator receiver domain; Region: Response_reg; pfam00072 401053003931 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 401053003932 active site 401053003933 phosphorylation site [posttranslational modification] 401053003934 intermolecular recognition site; other site 401053003935 dimerization interface [polypeptide binding]; other site 401053003936 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 401053003937 Sodium:solute symporter family; Region: SSF; cl00456 401053003938 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 401053003939 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 401053003940 active site 401053003941 ATP binding site [chemical binding]; other site 401053003942 substrate binding site [chemical binding]; other site 401053003943 activation loop (A-loop); other site 401053003944 TolB amino-terminal domain; Region: TolB_N; cl00639 401053003945 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 401053003946 TPR motif; other site 401053003947 binding surface 401053003948 TPR repeat; Region: TPR_11; pfam13414 401053003949 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 401053003950 TPR motif; other site 401053003951 binding surface 401053003952 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 401053003953 binding surface 401053003954 TPR motif; other site 401053003955 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 401053003956 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053003957 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 401053003958 DNA binding residues [nucleotide binding] 401053003959 enolase; Provisional; Region: eno; PRK00077 401053003960 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 401053003961 dimer interface [polypeptide binding]; other site 401053003962 metal binding site [ion binding]; metal-binding site 401053003963 substrate binding pocket [chemical binding]; other site 401053003964 Sulfatase; Region: Sulfatase; cl10460 401053003965 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 401053003966 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 401053003967 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053003968 recombination protein RecR; Reviewed; Region: recR; PRK00076 401053003969 RecR protein; Region: RecR; pfam02132 401053003970 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 401053003971 putative active site [active] 401053003972 putative metal-binding site [ion binding]; other site 401053003973 tetramer interface [polypeptide binding]; other site 401053003974 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 401053003975 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 401053003976 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 401053003977 Walker A motif; other site 401053003978 ATP binding site [chemical binding]; other site 401053003979 Walker B motif; other site 401053003980 arginine finger; other site 401053003981 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 401053003982 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 401053003983 YcxB-like protein; Region: YcxB; pfam14317 401053003984 SET domain; Region: SET; cl02566 401053003985 Protein of unknown function (DUF3808); Region: DUF3808; pfam10300 401053003986 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 401053003987 PspC domain; Region: PspC; cl00864 401053003988 diaminopimelate decarboxylase; Region: lysA; TIGR01048 401053003989 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 401053003990 active site 401053003991 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 401053003992 substrate binding site [chemical binding]; other site 401053003993 catalytic residues [active] 401053003994 dimer interface [polypeptide binding]; other site 401053003995 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053003996 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_12; cd07255 401053003997 putative metal binding site [ion binding]; other site 401053003998 Transcriptional regulator; Region: Transcrip_reg; cl00361 401053003999 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 401053004000 glutamate formiminotransferase; Region: FtcD; TIGR02024 401053004001 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 401053004002 Formiminotransferase domain; Region: FTCD; pfam02971 401053004003 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 401053004004 Helix-turn-helix domains; Region: HTH; cl00088 401053004005 Integrase core domain; Region: rve; cl01316 401053004006 Putative zinc-finger; Region: zf-HC2; cl15806 401053004007 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 401053004008 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053004009 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 401053004010 DNA binding residues [nucleotide binding] 401053004011 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 401053004012 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 401053004013 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 401053004014 N-acetyl-D-glucosamine binding site [chemical binding]; other site 401053004015 catalytic residue [active] 401053004016 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053004017 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 401053004018 FtsX-like permease family; Region: FtsX; cl15850 401053004019 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053004020 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 401053004021 FtsX-like permease family; Region: FtsX; cl15850 401053004022 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053004023 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 401053004024 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 401053004025 Immunoglobulin I-set domain; Region: I-set; pfam07679 401053004026 Immunoglobulin I-set domain; Region: I-set; pfam07679 401053004027 Immunoglobulin domain; Region: Ig; cl11960 401053004028 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 401053004029 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 401053004030 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 401053004031 Coagulation factor 5/8 C-terminal domain, discoidin domain; Region: FA58C; smart00231 401053004032 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 401053004033 Immunoglobulin I-set domain; Region: I-set; pfam07679 401053004034 Immunoglobulin domain; Region: Ig; cl11960 401053004035 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 401053004036 sugar binding site [chemical binding]; other site 401053004037 Immunoglobulin domain; Region: Ig; cl11960 401053004038 Immunoglobulin I-set domain; Region: I-set; pfam07679 401053004039 glycosyl hydrolase 64 family; Region: GH64-like; cd09214 401053004040 substrate binding pocket [chemical binding]; other site 401053004041 catalytic residues [active] 401053004042 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 401053004043 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 401053004044 MOFRL family; Region: MOFRL; pfam05161 401053004045 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 401053004046 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 401053004047 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004048 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 401053004049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004050 glycolate transporter; Provisional; Region: PRK09695 401053004051 L-lactate permease; Region: Lactate_perm; cl00701 401053004052 Transcriptional regulators [Transcription]; Region: FadR; COG2186 401053004053 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 401053004054 DNA-binding site [nucleotide binding]; DNA binding site 401053004055 FCD domain; Region: FCD; cl11656 401053004056 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053004057 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 401053004058 active site 401053004059 phosphorylation site [posttranslational modification] 401053004060 intermolecular recognition site; other site 401053004061 dimerization interface [polypeptide binding]; other site 401053004062 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 401053004063 DNA binding site [nucleotide binding] 401053004064 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 401053004065 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 401053004066 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 401053004067 dimer interface [polypeptide binding]; other site 401053004068 phosphorylation site [posttranslational modification] 401053004069 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 401053004070 ATP binding site [chemical binding]; other site 401053004071 Mg2+ binding site [ion binding]; other site 401053004072 G-X-G motif; other site 401053004073 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 401053004074 active site 401053004075 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004076 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 401053004077 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; cl00284 401053004078 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053004079 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053004080 homodimer interface [polypeptide binding]; other site 401053004081 active site 401053004082 TDP-binding site; other site 401053004083 acceptor substrate-binding pocket; other site 401053004084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 401053004085 MOSC domain; Region: MOSC; pfam03473 401053004086 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 401053004087 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 401053004088 Ca binding site [ion binding]; other site 401053004089 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 401053004090 Ca binding site [ion binding]; other site 401053004091 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004092 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 401053004093 Transcriptional regulators [Transcription]; Region: PurR; COG1609 401053004094 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 401053004095 DNA binding site [nucleotide binding] 401053004096 domain linker motif; other site 401053004097 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 401053004098 ligand binding site [chemical binding]; other site 401053004099 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 401053004100 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 401053004101 binding surface 401053004102 TPR motif; other site 401053004103 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 401053004104 binding surface 401053004105 TPR motif; other site 401053004106 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 401053004107 binding surface 401053004108 TPR motif; other site 401053004109 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 401053004110 TPR motif; other site 401053004111 TPR repeat; Region: TPR_11; pfam13414 401053004112 binding surface 401053004113 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 401053004114 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 401053004115 putative substrate translocation pore; other site 401053004116 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 401053004117 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004118 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; cl00284 401053004119 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053004120 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 401053004121 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 401053004122 Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; Region: NAGLU_N; pfam12971 401053004123 Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; Region: NAGLU; pfam05089 401053004124 Alpha-N-acetylglucosaminidase (NAGLU) C-terminal domain; Region: NAGLU_C; pfam12972 401053004125 Histidine kinase; Region: His_kinase; pfam06580 401053004126 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 401053004127 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 401053004128 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 401053004129 active site 401053004130 phosphorylation site [posttranslational modification] 401053004131 intermolecular recognition site; other site 401053004132 dimerization interface [polypeptide binding]; other site 401053004133 LytTr DNA-binding domain; Region: LytTR; cl04498 401053004134 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053004135 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 401053004136 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 401053004137 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 401053004138 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 401053004139 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 401053004140 Zn2+ binding site [ion binding]; other site 401053004141 Mg2+ binding site [ion binding]; other site 401053004142 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 401053004143 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 401053004144 active site 401053004145 motif I; other site 401053004146 motif II; other site 401053004147 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 401053004148 Major Facilitator Superfamily; Region: MFS_1; pfam07690 401053004149 putative substrate translocation pore; other site 401053004150 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 401053004151 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004152 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004153 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 401053004154 CHY zinc finger; Region: zf-CHY; pfam05495 401053004155 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 401053004156 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 401053004157 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 401053004158 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 401053004159 catalytic residues [active] 401053004160 Sulfatase; Region: Sulfatase; cl10460 401053004161 choline-sulfatase; Region: chol_sulfatase; TIGR03417 401053004162 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004163 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 401053004164 Sulfatase; Region: Sulfatase; cl10460 401053004165 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 401053004166 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004167 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; cl00284 401053004168 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 401053004169 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 401053004170 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004171 Histidine kinase; Region: His_kinase; pfam06580 401053004172 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 401053004173 ATP binding site [chemical binding]; other site 401053004174 Mg2+ binding site [ion binding]; other site 401053004175 G-X-G motif; other site 401053004176 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 401053004177 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 401053004178 active site 401053004179 phosphorylation site [posttranslational modification] 401053004180 intermolecular recognition site; other site 401053004181 dimerization interface [polypeptide binding]; other site 401053004182 LytTr DNA-binding domain; Region: LytTR; cl04498 401053004183 GAF domain; Region: GAF; cl15785 401053004184 Cytochrome c; Region: Cytochrom_C; cl11414 401053004185 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053004186 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 401053004187 Sulfatase; Region: Sulfatase; cl10460 401053004188 Transcriptional regulators [Transcription]; Region: GntR; COG1802 401053004189 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 401053004190 DNA-binding site [nucleotide binding]; DNA binding site 401053004191 FCD domain; Region: FCD; cl11656 401053004192 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004193 translocation protein TolB; Provisional; Region: tolB; PRK01742 401053004194 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053004195 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 401053004196 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053004197 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053004198 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 401053004199 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 401053004200 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053004201 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 401053004202 PA/protease or protease-like domain interface [polypeptide binding]; other site 401053004203 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053004204 metal binding site [ion binding]; metal-binding site 401053004205 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 401053004206 ATP-grasp domain; Region: ATP-grasp_4; cl03087 401053004207 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 401053004208 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 401053004209 active site 401053004210 dimer interface [polypeptide binding]; other site 401053004211 non-prolyl cis peptide bond; other site 401053004212 insertion regions; other site 401053004213 Helix-turn-helix domains; Region: HTH; cl00088 401053004214 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 401053004215 Cupin domain; Region: Cupin_2; cl09118 401053004216 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 401053004217 active site 401053004218 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 401053004219 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004220 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 401053004221 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 401053004222 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 401053004223 Helix-turn-helix domains; Region: HTH; cl00088 401053004224 Helix-turn-helix domains; Region: HTH; cl00088 401053004225 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 401053004226 protein binding site [polypeptide binding]; other site 401053004227 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053004228 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053004229 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053004230 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 401053004231 active site 401053004232 metal binding site [ion binding]; metal-binding site 401053004233 YCII-related domain; Region: YCII; cl00999 401053004234 Transcriptional regulators [Transcription]; Region: MarR; COG1846 401053004235 Helix-turn-helix domains; Region: HTH; cl00088 401053004236 Domain of unknown function DUF302; Region: DUF302; cl01364 401053004237 Domain of unknown function DUF302; Region: DUF302; cl01364 401053004238 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 401053004239 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 401053004240 NADP binding site [chemical binding]; other site 401053004241 dimer interface [polypeptide binding]; other site 401053004242 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 401053004243 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 401053004244 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 401053004245 peptidase domain interface [polypeptide binding]; other site 401053004246 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 401053004247 active site 401053004248 catalytic triad [active] 401053004249 calcium binding site [ion binding]; other site 401053004250 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cl12104 401053004251 active site 401053004252 K+ binding site [ion binding]; other site 401053004253 cobalamin binding site [chemical binding]; other site 401053004254 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 401053004255 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 401053004256 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 401053004257 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004258 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053004259 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 401053004260 DNA binding site [nucleotide binding] 401053004261 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 401053004262 TPR motif; other site 401053004263 TPR repeat; Region: TPR_11; pfam13414 401053004264 binding surface 401053004265 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 401053004266 TPR repeat; Region: TPR_11; pfam13414 401053004267 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 401053004268 TPR motif; other site 401053004269 binding surface 401053004270 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 401053004271 binding surface 401053004272 TPR motif; other site 401053004273 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 401053004274 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 401053004275 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 401053004276 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 401053004277 tetramer interface [polypeptide binding]; other site 401053004278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053004279 catalytic residue [active] 401053004280 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 401053004281 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 401053004282 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 401053004283 sugar binding site [chemical binding]; other site 401053004284 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 401053004285 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 401053004286 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 401053004287 protein binding site [polypeptide binding]; other site 401053004288 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 401053004289 protein binding site [polypeptide binding]; other site 401053004290 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 401053004291 Helix-turn-helix domains; Region: HTH; cl00088 401053004292 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 401053004293 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 401053004294 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 401053004295 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 401053004296 active site 401053004297 DNA binding site [nucleotide binding] 401053004298 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 401053004299 DNA binding site [nucleotide binding] 401053004300 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 401053004301 nucleotide binding site [chemical binding]; other site 401053004302 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 401053004303 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 401053004304 putative DNA binding site [nucleotide binding]; other site 401053004305 putative homodimer interface [polypeptide binding]; other site 401053004306 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 401053004307 Helix-turn-helix domains; Region: HTH; cl00088 401053004308 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053004309 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 401053004310 active site 401053004311 metal binding site [ion binding]; metal-binding site 401053004312 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 401053004313 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 401053004314 active site 401053004315 catalytic tetrad [active] 401053004316 malate synthase A; Region: malate_syn_A; TIGR01344 401053004317 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 401053004318 active site 401053004319 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 401053004320 TMAO/DMSO reductase; Reviewed; Region: PRK05363 401053004321 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 401053004322 Moco binding site; other site 401053004323 metal coordination site [ion binding]; other site 401053004324 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 401053004325 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 401053004326 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 401053004327 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 401053004328 putative catalytic residues [active] 401053004329 signal recognition particle protein; Provisional; Region: PRK10867 401053004330 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 401053004331 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 401053004332 P loop; other site 401053004333 GTP binding site [chemical binding]; other site 401053004334 Signal peptide binding domain; Region: SRP_SPB; pfam02978 401053004335 DinB superfamily; Region: DinB_2; pfam12867 401053004336 Predicted GTPase [General function prediction only]; Region: COG0218 401053004337 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 401053004338 G1 box; other site 401053004339 GTP/Mg2+ binding site [chemical binding]; other site 401053004340 Switch I region; other site 401053004341 G2 box; other site 401053004342 G3 box; other site 401053004343 Switch II region; other site 401053004344 G4 box; other site 401053004345 G5 box; other site 401053004346 PilZ domain; Region: PilZ; cl01260 401053004347 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053004348 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 401053004349 active site 401053004350 phosphorylation site [posttranslational modification] 401053004351 intermolecular recognition site; other site 401053004352 dimerization interface [polypeptide binding]; other site 401053004353 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 401053004354 DNA binding residues [nucleotide binding] 401053004355 dimerization interface [polypeptide binding]; other site 401053004356 YceI-like domain; Region: YceI; cl01001 401053004357 putative sialic acid transporter; Region: 2A0112; TIGR00891 401053004358 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 401053004359 putative substrate translocation pore; other site 401053004360 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 401053004361 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 401053004362 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 401053004363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004364 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 401053004365 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 401053004366 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053004367 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 401053004368 Sodium:solute symporter family; Region: SSF; cl00456 401053004369 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 401053004370 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053004371 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 401053004372 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 401053004373 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 401053004374 active site 401053004375 dimer interface [polypeptide binding]; other site 401053004376 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 401053004377 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 401053004378 active site 401053004379 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 401053004380 Glucuronate isomerase; Region: UxaC; cl00829 401053004381 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 401053004382 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 401053004383 ATP-binding site [chemical binding]; other site 401053004384 Gluconate-6-phosphate binding site [chemical binding]; other site 401053004385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004386 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053004387 NAD(P) binding site [chemical binding]; other site 401053004388 active site 401053004389 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 401053004390 AIR carboxylase; Region: AIRC; cl00310 401053004391 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 401053004392 homotrimer interaction site [polypeptide binding]; other site 401053004393 putative active site [active] 401053004394 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 401053004395 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 401053004396 Ligand Binding Site [chemical binding]; other site 401053004397 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 401053004398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004399 NAD(P) binding site [chemical binding]; other site 401053004400 active site 401053004401 Protein of unknown function DUF2617; Region: DUF2617; pfam10936 401053004402 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 401053004403 KduI/IolB family; Region: KduI; cl01508 401053004404 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 401053004405 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 401053004406 substrate binding site [chemical binding]; other site 401053004407 ATP binding site [chemical binding]; other site 401053004408 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 401053004409 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 401053004410 active site 401053004411 intersubunit interface [polypeptide binding]; other site 401053004412 catalytic residue [active] 401053004413 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 401053004414 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 401053004415 aminodeoxychorismate synthase; Provisional; Region: PRK07508 401053004416 chorismate binding enzyme; Region: Chorismate_bind; cl10555 401053004417 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 401053004418 substrate-cofactor binding pocket; other site 401053004419 homodimer interface [polypeptide binding]; other site 401053004420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053004421 catalytic residue [active] 401053004422 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053004423 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 401053004424 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 401053004425 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 401053004426 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 401053004427 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004428 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; cl00284 401053004429 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 401053004430 FAD binding domain; Region: FAD_binding_4; pfam01565 401053004431 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 401053004432 Berberine and berberine like; Region: BBE; pfam08031 401053004433 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 401053004434 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 401053004435 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 401053004436 substrate binding pocket [chemical binding]; other site 401053004437 membrane-bound complex binding site; other site 401053004438 hinge residues; other site 401053004439 Phosphoesterase family; Region: Phosphoesterase; cl15450 401053004440 Phosphoesterase family; Region: Phosphoesterase; cl15450 401053004441 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 401053004442 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 401053004443 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 401053004444 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 401053004445 intersubunit interface [polypeptide binding]; other site 401053004446 active site 401053004447 Zn2+ binding site [ion binding]; other site 401053004448 ribulokinase; Provisional; Region: PRK04123 401053004449 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 401053004450 N- and C-terminal domain interface [polypeptide binding]; other site 401053004451 active site 401053004452 MgATP binding site [chemical binding]; other site 401053004453 catalytic site [active] 401053004454 metal binding site [ion binding]; metal-binding site 401053004455 carbohydrate binding site [chemical binding]; other site 401053004456 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004457 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053004458 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 401053004459 beta-galactosidase; Provisional; Region: PLN03059 401053004460 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053004461 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 401053004462 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 401053004463 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 401053004464 active site 401053004465 catalytic triad [active] 401053004466 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 401053004467 active site 401053004468 catalytic triad [active] 401053004469 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 401053004470 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 401053004471 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 401053004472 active site 401053004473 catalytic site [active] 401053004474 TIGR03118 family protein; Region: PEPCTERM_chp_1 401053004475 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 401053004476 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 401053004477 putative active site [active] 401053004478 putative catalytic triad [active] 401053004479 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 401053004480 catalytic residues [active] 401053004481 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053004482 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 401053004483 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 401053004484 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 401053004485 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 401053004486 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 401053004487 Ligand Binding Site [chemical binding]; other site 401053004488 TolB amino-terminal domain; Region: TolB_N; cl00639 401053004489 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 401053004490 TPR motif; other site 401053004491 binding surface 401053004492 Tetratricopeptide repeat; Region: TPR_12; pfam13424 401053004493 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 401053004494 binding surface 401053004495 TPR motif; other site 401053004496 TolB amino-terminal domain; Region: TolB_N; cl00639 401053004497 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 401053004498 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053004499 Cytochrome c; Region: Cytochrom_C; cl11414 401053004500 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 401053004501 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 401053004502 D-pathway; other site 401053004503 Putative ubiquinol binding site [chemical binding]; other site 401053004504 Low-spin heme (heme b) binding site [chemical binding]; other site 401053004505 Putative water exit pathway; other site 401053004506 Binuclear center (heme o3/CuB) [ion binding]; other site 401053004507 K-pathway; other site 401053004508 Putative proton exit pathway; other site 401053004509 Heme-copper oxidase subunit III. 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. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 401053004510 Subunit I/III interface [polypeptide binding]; other site 401053004511 Cytochrome c; Region: Cytochrom_C; cl11414 401053004512 Cytochrome c; Region: Cytochrom_C; cl11414 401053004513 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 401053004514 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 401053004515 iron-sulfur cluster [ion binding]; other site 401053004516 [2Fe-2S] cluster binding site [ion binding]; other site 401053004517 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 401053004518 intrachain domain interface; other site 401053004519 interchain domain interface [polypeptide binding]; other site 401053004520 heme bH binding site [chemical binding]; other site 401053004521 Qi binding site; other site 401053004522 heme bL binding site [chemical binding]; other site 401053004523 Qo binding site; other site 401053004524 Cytochrome c; Region: Cytochrom_C; cl11414 401053004525 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 401053004526 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 401053004527 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 401053004528 Histidine kinase; Region: HisKA_3; pfam07730 401053004529 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 401053004530 ATP binding site [chemical binding]; other site 401053004531 Mg2+ binding site [ion binding]; other site 401053004532 G-X-G motif; other site 401053004533 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053004534 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 401053004535 active site 401053004536 phosphorylation site [posttranslational modification] 401053004537 intermolecular recognition site; other site 401053004538 dimerization interface [polypeptide binding]; other site 401053004539 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 401053004540 DNA binding residues [nucleotide binding] 401053004541 dimerization interface [polypeptide binding]; other site 401053004542 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053004543 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 401053004544 nucleophile elbow; other site 401053004545 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 401053004546 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 401053004547 active site 401053004548 dimer interface [polypeptide binding]; other site 401053004549 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 401053004550 dimer interface [polypeptide binding]; other site 401053004551 active site 401053004552 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 401053004553 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 401053004554 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 401053004555 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 401053004556 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 401053004557 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 401053004558 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 401053004559 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 401053004560 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 401053004561 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 401053004562 Uncharacterized conserved protein [Function unknown]; Region: COG3391 401053004563 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 401053004564 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 401053004565 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 401053004566 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 401053004567 CcmB protein; Region: CcmB; cl01016 401053004568 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 401053004569 putative deacylase active site [active] 401053004570 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 401053004571 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 401053004572 Walker A/P-loop; other site 401053004573 ATP binding site [chemical binding]; other site 401053004574 Q-loop/lid; other site 401053004575 ABC transporter signature motif; other site 401053004576 Walker B; other site 401053004577 D-loop; other site 401053004578 H-loop/switch region; other site 401053004579 CcmE; Region: CcmE; cl00994 401053004580 ThiC family; Region: ThiC; cl08031 401053004581 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053004582 PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to...; Region: PA_GCPII_like; cd02121 401053004583 apical/protease domain interface [polypeptide binding]; other site 401053004584 substrate binding [chemical binding]; other site 401053004585 dimer interface [polypeptide binding]; other site 401053004586 M28 Zn-peptidase prostate-specific membrane antigen; Region: M28_PSMA_like; cd08022 401053004587 dimer interface [polypeptide binding]; other site 401053004588 active site 401053004589 metal binding site [ion binding]; metal-binding site 401053004590 Transferrin receptor-like dimerisation domain; Region: TFR_dimer; pfam04253 401053004591 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 401053004592 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 401053004593 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 401053004594 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 401053004595 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 401053004596 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 401053004597 active site 401053004598 CAAX protease self-immunity; Region: Abi; cl00558 401053004599 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 401053004600 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 401053004601 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 401053004602 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 401053004603 Nitroreductase-like family 1. 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_1; cd02137 401053004604 dimer interface [polypeptide binding]; other site 401053004605 FMN binding site [chemical binding]; other site 401053004606 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 401053004607 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053004608 aromatic acid decarboxylase; Validated; Region: PRK05920 401053004609 Flavoprotein; Region: Flavoprotein; cl08021 401053004610 adenylosuccinate lyase; Provisional; Region: PRK07492 401053004611 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 401053004612 tetramer interface [polypeptide binding]; other site 401053004613 active site 401053004614 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 401053004615 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 401053004616 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 401053004617 Cl- selectivity filter; other site 401053004618 Cl- binding residues [ion binding]; other site 401053004619 pore gating glutamate residue; other site 401053004620 dimer interface [polypeptide binding]; other site 401053004621 FOG: CBS domain [General function prediction only]; Region: COG0517 401053004622 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 401053004623 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 401053004624 catalytic residues [active] 401053004625 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053004626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004627 NAD(P) binding site [chemical binding]; other site 401053004628 active site 401053004629 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 401053004630 nucleoside/Zn binding site; other site 401053004631 dimer interface [polypeptide binding]; other site 401053004632 catalytic motif [active] 401053004633 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 401053004634 PLD-like domain; Region: PLDc_2; pfam13091 401053004635 putative active site [active] 401053004636 catalytic site [active] 401053004637 agmatine deiminase; Region: agmatine_aguA; TIGR03380 401053004638 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 401053004639 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053004640 N-carbamolyputrescine amidase; Region: PLN02747 401053004641 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 401053004642 putative active site; other site 401053004643 catalytic triad [active] 401053004644 putative dimer interface [polypeptide binding]; other site 401053004645 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 401053004646 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 401053004647 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 401053004648 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 401053004649 short chain dehydrogenase; Provisional; Region: PRK08628 401053004650 classical (c) SDRs; Region: SDR_c; cd05233 401053004651 NAD(P) binding site [chemical binding]; other site 401053004652 active site 401053004653 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 401053004654 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 401053004655 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 401053004656 NHL repeat; Region: NHL; pfam01436 401053004657 Low-density lipoprotein receptor repeat class B; Region: Ldl_recept_b; cl10508 401053004658 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 401053004659 NHL repeat; Region: NHL; pfam01436 401053004660 excinuclease ABC subunit B; Provisional; Region: PRK05298 401053004661 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 401053004662 ATP binding site [chemical binding]; other site 401053004663 putative Mg++ binding site [ion binding]; other site 401053004664 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 401053004665 nucleotide binding region [chemical binding]; other site 401053004666 ATP-binding site [chemical binding]; other site 401053004667 Ultra-violet resistance protein B; Region: UvrB; pfam12344 401053004668 Predicted membrane protein [Function unknown]; Region: COG2311 401053004669 Protein of unknown function (DUF418); Region: DUF418; cl12135 401053004670 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 401053004671 Major Facilitator Superfamily; Region: MFS_1; pfam07690 401053004672 putative substrate translocation pore; other site 401053004673 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 401053004674 phosphoglycolate phosphatase; Provisional; Region: PRK13222 401053004675 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 401053004676 motif II; other site 401053004677 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 401053004678 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 401053004679 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 401053004680 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053004681 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 401053004682 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 401053004683 Helix-turn-helix domains; Region: HTH; cl00088 401053004684 LexA repressor; Validated; Region: PRK00215 401053004685 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 401053004686 Catalytic site [active] 401053004687 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053004688 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 401053004689 active site 401053004690 phosphorylation site [posttranslational modification] 401053004691 intermolecular recognition site; other site 401053004692 dimerization interface [polypeptide binding]; other site 401053004693 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 401053004694 DNA binding site [nucleotide binding] 401053004695 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 401053004696 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 401053004697 Walker A motif; other site 401053004698 ATP binding site [chemical binding]; other site 401053004699 Walker B motif; other site 401053004700 arginine finger; other site 401053004701 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 401053004702 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 401053004703 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 401053004704 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 401053004705 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 401053004706 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 401053004707 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 401053004708 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 401053004709 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 401053004710 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 401053004711 FliG C-terminal domain; Region: FliG_C; pfam01706 401053004712 Flagellar assembly protein FliH; Region: FliH; pfam02108 401053004713 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 401053004714 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053004715 Walker A motif; other site 401053004716 ATP binding site [chemical binding]; other site 401053004717 Walker B motif; other site 401053004718 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 401053004719 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 401053004720 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 401053004721 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 401053004722 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 401053004723 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 401053004724 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 401053004725 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 401053004726 FliP family; Region: FliP; cl00593 401053004727 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 401053004728 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 401053004729 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 401053004730 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 401053004731 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 401053004732 FHIPEP family; Region: FHIPEP; pfam00771 401053004733 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 401053004734 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053004735 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 401053004736 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 401053004737 DNA binding residues [nucleotide binding] 401053004738 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 401053004739 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 401053004740 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 401053004741 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 401053004742 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 401053004743 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 401053004744 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 401053004745 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 401053004746 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 401053004747 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 401053004748 Flagellar L-ring protein; Region: FlgH; cl00905 401053004749 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 401053004750 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 401053004751 Rod binding protein; Region: Rod-binding; cl01626 401053004752 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 401053004753 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 401053004754 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 401053004755 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 401053004756 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 401053004757 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 401053004758 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053004759 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053004760 active site 401053004761 TDP-binding site; other site 401053004762 acceptor substrate-binding pocket; other site 401053004763 homodimer interface [polypeptide binding]; other site 401053004764 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053004765 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053004766 active site 401053004767 TDP-binding site; other site 401053004768 acceptor substrate-binding pocket; other site 401053004769 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 401053004770 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 401053004771 16S/18S rRNA binding site [nucleotide binding]; other site 401053004772 S13e-L30e interaction site [polypeptide binding]; other site 401053004773 25S rRNA binding site [nucleotide binding]; other site 401053004774 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 401053004775 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 401053004776 RNase E interface [polypeptide binding]; other site 401053004777 trimer interface [polypeptide binding]; other site 401053004778 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 401053004779 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 401053004780 RNase E interface [polypeptide binding]; other site 401053004781 trimer interface [polypeptide binding]; other site 401053004782 active site 401053004783 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 401053004784 putative nucleic acid binding region [nucleotide binding]; other site 401053004785 G-X-X-G motif; other site 401053004786 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 401053004787 RNA binding site [nucleotide binding]; other site 401053004788 domain interface; other site 401053004789 The Phox Homology domain, a phosphoinositide binding module; Region: PX_domain; cl02563 401053004790 phosphoinositide binding site [chemical binding]; other site 401053004791 OpgC protein; Region: OpgC_C; cl00792 401053004792 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 401053004793 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 401053004794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004795 TIGR01777 family protein; Region: yfcH 401053004796 NAD(P) binding site [chemical binding]; other site 401053004797 active site 401053004798 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 401053004799 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 401053004800 Walker A/P-loop; other site 401053004801 ATP binding site [chemical binding]; other site 401053004802 Q-loop/lid; other site 401053004803 ABC transporter signature motif; other site 401053004804 Walker B; other site 401053004805 D-loop; other site 401053004806 H-loop/switch region; other site 401053004807 Permease; Region: Permease; cl00510 401053004808 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 401053004809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004810 NAD(P) binding site [chemical binding]; other site 401053004811 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 401053004812 active site lid residues [active] 401053004813 substrate binding pocket [chemical binding]; other site 401053004814 catalytic residues [active] 401053004815 substrate-Mg2+ binding site; other site 401053004816 aspartate-rich region 1; other site 401053004817 aspartate-rich region 2; other site 401053004818 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 401053004819 active site lid residues [active] 401053004820 substrate binding pocket [chemical binding]; other site 401053004821 catalytic residues [active] 401053004822 substrate-Mg2+ binding site; other site 401053004823 aspartate-rich region 1; other site 401053004824 aspartate-rich region 2; other site 401053004825 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 401053004826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004827 EamA-like transporter family; Region: EamA; cl01037 401053004828 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 401053004829 Mechanosensitive ion channel; Region: MS_channel; pfam00924 401053004830 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 401053004831 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 401053004832 B12 binding site [chemical binding]; other site 401053004833 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053004834 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 401053004835 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 401053004836 TPR motif; other site 401053004837 binding surface 401053004838 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053004839 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 401053004840 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 401053004841 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 401053004842 DHH family; Region: DHH; pfam01368 401053004843 DHHA1 domain; Region: DHHA1; pfam02272 401053004844 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 401053004845 dimer interface [polypeptide binding]; other site 401053004846 [2Fe-2S] cluster binding site [ion binding]; other site 401053004847 Protein of unknown function (DUF507); Region: DUF507; cl01112 401053004848 Protein of unknown function (DUF507); Region: DUF507; cl01112 401053004849 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053004850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004851 NAD(P) binding site [chemical binding]; other site 401053004852 active site 401053004853 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 401053004854 active site 401053004855 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053004856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004857 NAD(P) binding site [chemical binding]; other site 401053004858 active site 401053004859 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 401053004860 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 401053004861 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 401053004862 FeS/SAM binding site; other site 401053004863 TRAM domain; Region: TRAM; cl01282 401053004864 Bifunctional nuclease; Region: DNase-RNase; cl00553 401053004865 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 401053004866 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 401053004867 hinge; other site 401053004868 active site 401053004869 GAF domain; Region: GAF_2; pfam13185 401053004870 GAF domain; Region: GAF; cl15785 401053004871 GAF domain; Region: GAF_2; pfam13185 401053004872 GAF domain; Region: GAF; cl15785 401053004873 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 401053004874 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 401053004875 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 401053004876 intersubunit interface [polypeptide binding]; other site 401053004877 active site 401053004878 catalytic residue [active] 401053004879 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 401053004880 Fe-S cluster binding site [ion binding]; other site 401053004881 active site 401053004882 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 401053004883 active site 401053004884 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053004885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053004886 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 401053004887 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 401053004888 Protein of unknown function DUF45; Region: DUF45; cl00636 401053004889 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 401053004890 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 401053004891 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 401053004892 TPR motif; other site 401053004893 binding surface 401053004894 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 401053004895 TPR motif; other site 401053004896 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 401053004897 binding surface 401053004898 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 401053004899 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 401053004900 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053004901 ABC transporter signature motif; other site 401053004902 Walker B; other site 401053004903 D-loop; other site 401053004904 H-loop/switch region; other site 401053004905 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 401053004906 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 401053004907 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 401053004908 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 401053004909 active site 401053004910 HIGH motif; other site 401053004911 nucleotide binding site [chemical binding]; other site 401053004912 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 401053004913 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 401053004914 active site 401053004915 KMSKS motif; other site 401053004916 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 401053004917 tRNA binding surface [nucleotide binding]; other site 401053004918 anticodon binding site; other site 401053004919 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 401053004920 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053004921 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 401053004922 putative active site [active] 401053004923 putative metal binding residues [ion binding]; other site 401053004924 signature motif; other site 401053004925 putative triphosphate binding site [ion binding]; other site 401053004926 dimer interface [polypeptide binding]; other site 401053004927 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 401053004928 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 401053004929 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 401053004930 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053004931 DNA polymerase III subunit delta'; Validated; Region: PRK05564 401053004932 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 401053004933 motif II; other site 401053004934 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053004935 homodimer interface [polypeptide binding]; other site 401053004936 glycosyltransferase, MGT family; Region: MGT; TIGR01426 401053004937 active site 401053004938 TDP-binding site; other site 401053004939 acceptor substrate-binding pocket; other site 401053004940 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053004941 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 401053004942 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 401053004943 putative substrate translocation pore; other site 401053004944 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 401053004945 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 401053004946 multidrug resistance protein MdtN; Provisional; Region: PRK10476 401053004947 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 401053004948 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 401053004949 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053004950 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 401053004951 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 401053004952 motif II; other site 401053004953 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 401053004954 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 401053004955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053004956 homodimer interface [polypeptide binding]; other site 401053004957 catalytic residue [active] 401053004958 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053004959 Preprotein translocase SecG subunit; Region: SecG; cl09123 401053004960 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 401053004961 Ligand Binding Site [chemical binding]; other site 401053004962 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 401053004963 RHS Repeat; Region: RHS_repeat; cl11982 401053004964 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 401053004965 Predicted ATPase [General function prediction only]; Region: COG3910 401053004966 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053004967 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 401053004968 Walker B; other site 401053004969 D-loop; other site 401053004970 H-loop/switch region; other site 401053004971 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 401053004972 salt bridge; other site 401053004973 non-specific DNA binding site [nucleotide binding]; other site 401053004974 sequence-specific DNA binding site [nucleotide binding]; other site 401053004975 thymidylate kinase; Validated; Region: tmk; PRK00698 401053004976 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 401053004977 TMP-binding site; other site 401053004978 ATP-binding site [chemical binding]; other site 401053004979 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 401053004980 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 401053004981 active site 401053004982 phosphorylation site [posttranslational modification] 401053004983 intermolecular recognition site; other site 401053004984 dimerization interface [polypeptide binding]; other site 401053004985 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053004986 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053004987 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053004988 FtsX-like permease family; Region: FtsX; cl15850 401053004989 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 401053004990 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 401053004991 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 401053004992 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 401053004993 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; cl00284 401053004994 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 401053004995 Helix-turn-helix domains; Region: HTH; cl00088 401053004996 WHG domain; Region: WHG; pfam13305 401053004997 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053004998 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 401053004999 dimer interface [polypeptide binding]; other site 401053005000 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; cl01922 401053005001 Asp-box motif; other site 401053005002 Deoxyribonuclease II; Region: DNase_II; pfam03265 401053005003 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 401053005004 putative active site [active] 401053005005 catalytic site [active] 401053005006 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 401053005007 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 401053005008 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 401053005009 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 401053005010 trimer interface [polypeptide binding]; other site 401053005011 active site 401053005012 UDP-GlcNAc binding site [chemical binding]; other site 401053005013 lipid binding site [chemical binding]; lipid-binding site 401053005014 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 401053005015 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 401053005016 active site 401053005017 NTP binding site [chemical binding]; other site 401053005018 metal binding triad [ion binding]; metal-binding site 401053005019 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 401053005020 putative active site [active] 401053005021 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 401053005022 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 401053005023 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 401053005024 generic binding surface I; other site 401053005025 generic binding surface II; other site 401053005026 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 401053005027 CAAX protease self-immunity; Region: Abi; cl00558 401053005028 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 401053005029 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 401053005030 active site 401053005031 dimer interface [polypeptide binding]; other site 401053005032 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 401053005033 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 401053005034 dimer interface [polypeptide binding]; other site 401053005035 substrate binding site [chemical binding]; other site 401053005036 ATP binding site [chemical binding]; other site 401053005037 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 401053005038 thiS-thiF/thiG interaction site; other site 401053005039 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005040 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; cl00284 401053005041 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 401053005042 putative ADP-binding pocket [chemical binding]; other site 401053005043 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 401053005044 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 401053005045 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 401053005046 SLBB domain; Region: SLBB; pfam10531 401053005047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005048 Bacterial sugar transferase; Region: Bac_transf; cl00939 401053005049 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053005050 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 401053005051 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 401053005052 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 401053005053 active site 401053005054 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 401053005055 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 401053005056 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 401053005057 MatE; Region: MatE; cl10513 401053005058 O-Antigen ligase; Region: Wzy_C; cl04850 401053005059 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053005060 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 401053005061 Right handed beta helix region; Region: Beta_helix; pfam13229 401053005062 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053005063 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 401053005064 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 401053005065 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 401053005066 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 401053005067 dimerization interface [polypeptide binding]; other site 401053005068 active site 401053005069 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 401053005070 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 401053005071 catalytic loop [active] 401053005072 iron binding site [ion binding]; other site 401053005073 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 401053005074 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 401053005075 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 401053005076 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 401053005077 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 401053005078 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 401053005079 DEAD-like helicases superfamily; Region: DEXDc; smart00487 401053005080 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 401053005081 ATP binding site [chemical binding]; other site 401053005082 putative Mg++ binding site [ion binding]; other site 401053005083 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 401053005084 nucleotide binding region [chemical binding]; other site 401053005085 ATP-binding site [chemical binding]; other site 401053005086 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 401053005087 HRDC domain; Region: HRDC; cl02578 401053005088 HRDC domain; Region: HRDC; cl02578 401053005089 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 401053005090 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 401053005091 active site 401053005092 multimer interface [polypeptide binding]; other site 401053005093 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 401053005094 predicted active site [active] 401053005095 catalytic triad [active] 401053005096 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053005097 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 401053005098 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 401053005099 D-pathway; other site 401053005100 Low-spin heme binding site [chemical binding]; other site 401053005101 Putative water exit pathway; other site 401053005102 Binuclear center (active site) [active] 401053005103 K-pathway; other site 401053005104 Putative proton exit pathway; other site 401053005105 Heme-copper oxidase subunit III. 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. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 401053005106 Subunit I/III interface [polypeptide binding]; other site 401053005107 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053005108 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 401053005109 metal binding site [ion binding]; metal-binding site 401053005110 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 401053005111 acetylornithine aminotransferase; Provisional; Region: PRK02627 401053005112 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 401053005113 inhibitor-cofactor binding pocket; inhibition site 401053005114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053005115 catalytic residue [active] 401053005116 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 401053005117 GAF domain; Region: GAF_2; pfam13185 401053005118 GAF domain; Region: GAF; cl15785 401053005119 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 401053005120 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 401053005121 putative active site [active] 401053005122 heme pocket [chemical binding]; other site 401053005123 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 401053005124 dimer interface [polypeptide binding]; other site 401053005125 phosphorylation site [posttranslational modification] 401053005126 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 401053005127 ATP binding site [chemical binding]; other site 401053005128 Mg2+ binding site [ion binding]; other site 401053005129 G-X-G motif; other site 401053005130 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 401053005131 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 401053005132 active site 401053005133 phosphorylation site [posttranslational modification] 401053005134 intermolecular recognition site; other site 401053005135 dimerization interface [polypeptide binding]; other site 401053005136 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 401053005137 Walker A motif; other site 401053005138 ATP binding site [chemical binding]; other site 401053005139 Walker B motif; other site 401053005140 arginine finger; other site 401053005141 Helix-turn-helix domains; Region: HTH; cl00088 401053005142 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 401053005143 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 401053005144 putative NAD(P) binding site [chemical binding]; other site 401053005145 catalytic Zn binding site [ion binding]; other site 401053005146 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 401053005147 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 401053005148 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 401053005149 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 401053005150 putative NADP binding site [chemical binding]; other site 401053005151 putative substrate binding site [chemical binding]; other site 401053005152 active site 401053005153 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053005154 classical (c) SDRs; Region: SDR_c; cd05233 401053005155 NAD(P) binding site [chemical binding]; other site 401053005156 active site 401053005157 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 401053005158 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 401053005159 FeS/SAM binding site; other site 401053005160 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 401053005161 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 401053005162 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 401053005163 Active site cavity [active] 401053005164 catalytic acid [active] 401053005165 LytB protein; Region: LYTB; cl00507 401053005166 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 401053005167 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 401053005168 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 401053005169 Walker A/P-loop; other site 401053005170 ATP binding site [chemical binding]; other site 401053005171 Q-loop/lid; other site 401053005172 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 401053005173 ABC transporter signature motif; other site 401053005174 Walker B; other site 401053005175 D-loop; other site 401053005176 H-loop/switch region; other site 401053005177 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 401053005178 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 401053005179 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053005180 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 401053005181 TolB amino-terminal domain; Region: TolB_N; cl00639 401053005182 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053005183 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053005184 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053005185 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053005186 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 401053005187 ligand binding site [chemical binding]; other site 401053005188 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 401053005189 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 401053005190 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 401053005191 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 401053005192 ATP-grasp domain; Region: ATP-grasp_4; cl03087 401053005193 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 401053005194 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 401053005195 ATP-grasp domain; Region: ATP-grasp_4; cl03087 401053005196 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 401053005197 IMP binding site; other site 401053005198 dimer interface [polypeptide binding]; other site 401053005199 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 401053005200 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 401053005201 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 401053005202 catalytic site [active] 401053005203 subunit interface [polypeptide binding]; other site 401053005204 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 401053005205 iron-sulfur cluster [ion binding]; other site 401053005206 [2Fe-2S] cluster binding site [ion binding]; other site 401053005207 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 401053005208 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053005209 DoxX; Region: DoxX; cl00976 401053005210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 401053005211 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 401053005212 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 401053005213 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 401053005214 tetramer interface [polypeptide binding]; other site 401053005215 TPP-binding site [chemical binding]; other site 401053005216 heterodimer interface [polypeptide binding]; other site 401053005217 phosphorylation loop region [posttranslational modification] 401053005218 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 401053005219 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 401053005220 alpha subunit interface [polypeptide binding]; other site 401053005221 TPP binding site [chemical binding]; other site 401053005222 heterodimer interface [polypeptide binding]; other site 401053005223 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 401053005224 Mechanosensitive ion channel; Region: MS_channel; pfam00924 401053005225 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 401053005226 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 401053005227 catalytic residues [active] 401053005228 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 401053005229 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053005230 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 401053005231 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 401053005232 dimerization interface 3.5A [polypeptide binding]; other site 401053005233 active site 401053005234 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 401053005235 putative metal binding site [ion binding]; other site 401053005236 EamA-like transporter family; Region: EamA; cl01037 401053005237 EamA-like transporter family; Region: EamA; cl01037 401053005238 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 401053005239 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 401053005240 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 401053005241 protein binding site [polypeptide binding]; other site 401053005242 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 401053005243 protein binding site [polypeptide binding]; other site 401053005244 His-Xaa-Ser repeat protein HxsA; Region: His_Ser_Rich; TIGR03979 401053005245 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 401053005246 Septum formation initiator; Region: DivIC; cl11433 401053005247 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 401053005248 NMT1-like family; Region: NMT1_2; cl15260 401053005249 MatE; Region: MatE; cl10513 401053005250 MatE; Region: MatE; cl10513 401053005251 Helix-turn-helix domains; Region: HTH; cl00088 401053005252 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 401053005253 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005254 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; cl00284 401053005255 hypothetical protein; Provisional; Region: PRK06185 401053005256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005257 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053005258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005259 Spore germination protein; Region: Spore_permease; cl15802 401053005260 amino acid transporter; Region: 2A0306; TIGR00909 401053005261 Spore germination protein; Region: Spore_permease; cl15802 401053005262 Spore germination protein; Region: Spore_permease; cl15802 401053005263 L-type amino acid transporter; Region: 2A0308; TIGR00911 401053005264 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 401053005265 active site 401053005266 thiamine phosphate binding site [chemical binding]; other site 401053005267 pyrophosphate binding site [ion binding]; other site 401053005268 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053005269 classical (c) SDRs; Region: SDR_c; cd05233 401053005270 NAD(P) binding site [chemical binding]; other site 401053005271 active site 401053005272 Nitronate monooxygenase; Region: NMO; pfam03060 401053005273 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 401053005274 FMN binding site [chemical binding]; other site 401053005275 substrate binding site [chemical binding]; other site 401053005276 putative catalytic residue [active] 401053005277 Predicted membrane protein [Function unknown]; Region: COG2311 401053005278 Protein of unknown function (DUF418); Region: DUF418; cl12135 401053005279 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 401053005280 putative hydrophobic ligand binding site [chemical binding]; other site 401053005281 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 401053005282 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 401053005283 ATP-grasp domain; Region: ATP-grasp_4; cl03087 401053005284 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 401053005285 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 401053005286 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 401053005287 carboxyltransferase (CT) interaction site; other site 401053005288 biotinylation site [posttranslational modification]; other site 401053005289 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 401053005290 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 401053005291 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 401053005292 active site 401053005293 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 401053005294 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053005295 putative active site [active] 401053005296 putative metal binding site [ion binding]; other site 401053005297 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 401053005298 DNA binding residues [nucleotide binding] 401053005299 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 401053005300 AMP-binding enzyme; Region: AMP-binding; cl15778 401053005301 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 401053005302 Helix-turn-helix domains; Region: HTH; cl00088 401053005303 Integrase core domain; Region: rve; cl01316 401053005304 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 401053005305 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 401053005306 active site 401053005307 dimer interface [polypeptide binding]; other site 401053005308 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 401053005309 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 401053005310 active site 401053005311 FMN binding site [chemical binding]; other site 401053005312 substrate binding site [chemical binding]; other site 401053005313 3Fe-4S cluster binding site [ion binding]; other site 401053005314 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 401053005315 domain_subunit interface; other site 401053005316 Arginine repressor [Transcription]; Region: ArgR; COG1438 401053005317 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 401053005318 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 401053005319 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 401053005320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005321 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 401053005322 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 401053005323 nucleotide binding site [chemical binding]; other site 401053005324 N-acetyl-L-glutamate binding site [chemical binding]; other site 401053005325 acetylornithine aminotransferase; Provisional; Region: PRK02627 401053005326 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 401053005327 inhibitor-cofactor binding pocket; inhibition site 401053005328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053005329 catalytic residue [active] 401053005330 ornithine carbamoyltransferase; Provisional; Region: PRK00779 401053005331 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 401053005332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005333 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 401053005334 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 401053005335 ANP binding site [chemical binding]; other site 401053005336 Substrate Binding Site II [chemical binding]; other site 401053005337 Substrate Binding Site I [chemical binding]; other site 401053005338 argininosuccinate lyase; Provisional; Region: PRK00855 401053005339 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 401053005340 active sites [active] 401053005341 tetramer interface [polypeptide binding]; other site 401053005342 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 401053005343 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053005344 Coenzyme A binding pocket [chemical binding]; other site 401053005345 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 401053005346 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053005347 Walker A/P-loop; other site 401053005348 ATP binding site [chemical binding]; other site 401053005349 Q-loop/lid; other site 401053005350 ABC transporter signature motif; other site 401053005351 Walker B; other site 401053005352 D-loop; other site 401053005353 H-loop/switch region; other site 401053005354 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 401053005355 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 401053005356 motif II; other site 401053005357 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053005358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005359 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 401053005360 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 401053005361 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005362 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 401053005363 Sulfatase; Region: Sulfatase; cl10460 401053005364 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 401053005365 dimer interface [polypeptide binding]; other site 401053005366 putative radical transfer pathway; other site 401053005367 diiron center [ion binding]; other site 401053005368 tyrosyl radical; other site 401053005369 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 401053005370 ATP cone domain; Region: ATP-cone; pfam03477 401053005371 Class I ribonucleotide reductase; Region: RNR_I; cd01679 401053005372 active site 401053005373 dimer interface [polypeptide binding]; other site 401053005374 catalytic residues [active] 401053005375 effector binding site; other site 401053005376 R2 peptide binding site; other site 401053005377 thiamine pyrophosphate protein; Provisional; Region: PRK08273 401053005378 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 401053005379 PYR/PP interface [polypeptide binding]; other site 401053005380 tetramer interface [polypeptide binding]; other site 401053005381 dimer interface [polypeptide binding]; other site 401053005382 TPP binding site [chemical binding]; other site 401053005383 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 401053005384 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 401053005385 TPP-binding site [chemical binding]; other site 401053005386 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 401053005387 dimer interface [polypeptide binding]; other site 401053005388 active site 401053005389 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 401053005390 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 401053005391 substrate binding site; other site 401053005392 tetramer interface; other site 401053005393 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 401053005394 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 401053005395 NAD binding site [chemical binding]; other site 401053005396 substrate binding site [chemical binding]; other site 401053005397 homodimer interface [polypeptide binding]; other site 401053005398 active site 401053005399 Cupin domain; Region: Cupin_2; cl09118 401053005400 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 401053005401 putative active site [active] 401053005402 putative metal binding site [ion binding]; other site 401053005403 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005404 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 401053005405 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 401053005406 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 401053005407 active site residue [active] 401053005408 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 401053005409 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 401053005410 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 401053005411 active site 401053005412 catalytic site [active] 401053005413 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053005414 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053005415 homodimer interface [polypeptide binding]; other site 401053005416 active site 401053005417 TDP-binding site; other site 401053005418 acceptor substrate-binding pocket; other site 401053005419 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 401053005420 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 401053005421 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 401053005422 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 401053005423 RNA binding site [nucleotide binding]; other site 401053005424 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 401053005425 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053005426 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 401053005427 DNA binding residues [nucleotide binding] 401053005428 CHASE3 domain; Region: CHASE3; cl05000 401053005429 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 401053005430 PAS domain; Region: PAS_9; pfam13426 401053005431 putative active site [active] 401053005432 heme pocket [chemical binding]; other site 401053005433 PAS domain S-box; Region: sensory_box; TIGR00229 401053005434 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 401053005435 putative active site [active] 401053005436 heme pocket [chemical binding]; other site 401053005437 PAS domain S-box; Region: sensory_box; TIGR00229 401053005438 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 401053005439 putative active site [active] 401053005440 heme pocket [chemical binding]; other site 401053005441 PAS domain S-box; Region: sensory_box; TIGR00229 401053005442 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 401053005443 putative active site [active] 401053005444 heme pocket [chemical binding]; other site 401053005445 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 401053005446 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 401053005447 putative active site [active] 401053005448 heme pocket [chemical binding]; other site 401053005449 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 401053005450 dimer interface [polypeptide binding]; other site 401053005451 phosphorylation site [posttranslational modification] 401053005452 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 401053005453 ATP binding site [chemical binding]; other site 401053005454 Mg2+ binding site [ion binding]; other site 401053005455 G-X-G motif; other site 401053005456 Response regulator receiver domain; Region: Response_reg; pfam00072 401053005457 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 401053005458 active site 401053005459 phosphorylation site [posttranslational modification] 401053005460 intermolecular recognition site; other site 401053005461 dimerization interface [polypeptide binding]; other site 401053005462 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 401053005463 active site 401053005464 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 401053005465 phosphorylation site [posttranslational modification] 401053005466 intermolecular recognition site; other site 401053005467 dimerization interface [polypeptide binding]; other site 401053005468 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 401053005469 putative active site [active] 401053005470 heme pocket [chemical binding]; other site 401053005471 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053005472 metal binding site [ion binding]; metal-binding site 401053005473 active site 401053005474 I-site; other site 401053005475 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 401053005476 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 401053005477 active site 401053005478 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 401053005479 phosphorylation site [posttranslational modification] 401053005480 intermolecular recognition site; other site 401053005481 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 401053005482 putative active site [active] 401053005483 heme pocket [chemical binding]; other site 401053005484 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053005485 metal binding site [ion binding]; metal-binding site 401053005486 active site 401053005487 I-site; other site 401053005488 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 401053005489 L-lactate permease; Region: Lactate_perm; cl00701 401053005490 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 401053005491 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 401053005492 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 401053005493 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 401053005494 substrate binding pocket [chemical binding]; other site 401053005495 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 401053005496 B12 binding site [chemical binding]; other site 401053005497 cobalt ligand [ion binding]; other site 401053005498 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 401053005499 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053005500 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 401053005501 active site 401053005502 phosphorylation site [posttranslational modification] 401053005503 intermolecular recognition site; other site 401053005504 dimerization interface [polypeptide binding]; other site 401053005505 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 401053005506 DNA binding residues [nucleotide binding] 401053005507 dimerization interface [polypeptide binding]; other site 401053005508 Predicted membrane protein [Function unknown]; Region: COG3918 401053005509 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 401053005510 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 401053005511 Histidine kinase; Region: HisKA_3; pfam07730 401053005512 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 401053005513 ATP binding site [chemical binding]; other site 401053005514 Mg2+ binding site [ion binding]; other site 401053005515 G-X-G motif; other site 401053005516 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 401053005517 active site 401053005518 catalytic residues [active] 401053005519 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053005520 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 401053005521 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 401053005522 coenzyme PQQ biosynthesis enzyme PqqE; Region: PQQ_syn_pqqE; TIGR02109 401053005523 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 401053005524 FeS/SAM binding site; other site 401053005525 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 401053005526 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 401053005527 structural tetrad; other site 401053005528 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 401053005529 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 401053005530 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 401053005531 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 401053005532 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 401053005533 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 401053005534 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 401053005535 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053005536 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005537 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 401053005538 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 401053005539 dimer interface [polypeptide binding]; other site 401053005540 phosphorylation site [posttranslational modification] 401053005541 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 401053005542 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053005543 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 401053005544 active site 401053005545 phosphorylation site [posttranslational modification] 401053005546 intermolecular recognition site; other site 401053005547 dimerization interface [polypeptide binding]; other site 401053005548 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 401053005549 DNA binding site [nucleotide binding] 401053005550 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 401053005551 NHL repeat; Region: NHL; pfam01436 401053005552 NHL repeat; Region: NHL; pfam01436 401053005553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005554 Helix-turn-helix domains; Region: HTH; cl00088 401053005555 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 401053005556 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 401053005557 dimer interface [polypeptide binding]; other site 401053005558 active site 401053005559 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053005560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005561 Methane oxygenase PmoA; Region: PmoA; pfam14100 401053005562 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005563 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005564 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; cl00284 401053005565 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053005566 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 401053005567 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 401053005568 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 401053005569 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 401053005570 Walker A/P-loop; other site 401053005571 ATP binding site [chemical binding]; other site 401053005572 Q-loop/lid; other site 401053005573 ABC transporter signature motif; other site 401053005574 Walker B; other site 401053005575 D-loop; other site 401053005576 H-loop/switch region; other site 401053005577 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 401053005578 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 401053005579 metal binding site 2 [ion binding]; metal-binding site 401053005580 putative DNA binding helix; other site 401053005581 metal binding site 1 [ion binding]; metal-binding site 401053005582 dimer interface [polypeptide binding]; other site 401053005583 structural Zn2+ binding site [ion binding]; other site 401053005584 Helix-turn-helix domains; Region: HTH; cl00088 401053005585 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 401053005586 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 401053005587 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 401053005588 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 401053005589 putative active site pocket [active] 401053005590 metal binding site [ion binding]; metal-binding site 401053005591 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 401053005592 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 401053005593 dimer interface [polypeptide binding]; other site 401053005594 active site 401053005595 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 401053005596 dimer interface [polypeptide binding]; other site 401053005597 active site 401053005598 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 401053005599 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 401053005600 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 401053005601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053005602 homodimer interface [polypeptide binding]; other site 401053005603 catalytic residue [active] 401053005604 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 401053005605 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 401053005606 DNA binding residues [nucleotide binding] 401053005607 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053005608 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 401053005609 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 401053005610 Outer membrane efflux protein; Region: OEP; pfam02321 401053005611 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 401053005612 dimer interface [polypeptide binding]; other site 401053005613 phosphorylation site [posttranslational modification] 401053005614 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 401053005615 ATP binding site [chemical binding]; other site 401053005616 Mg2+ binding site [ion binding]; other site 401053005617 G-X-G motif; other site 401053005618 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 401053005619 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 401053005620 active site 401053005621 phosphorylation site [posttranslational modification] 401053005622 intermolecular recognition site; other site 401053005623 dimerization interface [polypeptide binding]; other site 401053005624 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 401053005625 Walker A motif; other site 401053005626 ATP binding site [chemical binding]; other site 401053005627 Walker B motif; other site 401053005628 arginine finger; other site 401053005629 Helix-turn-helix domains; Region: HTH; cl00088 401053005630 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 401053005631 catalytic core [active] 401053005632 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 401053005633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005634 Methyltransferase domain; Region: Methyltransf_31; pfam13847 401053005635 heat shock protein 90; Provisional; Region: PRK05218 401053005636 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 401053005637 ATP binding site [chemical binding]; other site 401053005638 Mg2+ binding site [ion binding]; other site 401053005639 G-X-G motif; other site 401053005640 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 401053005641 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 401053005642 ATP binding site [chemical binding]; other site 401053005643 putative Mg++ binding site [ion binding]; other site 401053005644 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 401053005645 nucleotide binding region [chemical binding]; other site 401053005646 ATP-binding site [chemical binding]; other site 401053005647 Helicase associated domain (HA2); Region: HA2; cl04503 401053005648 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 401053005649 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 401053005650 ATP-grasp domain; Region: ATP-grasp_4; cl03087 401053005651 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 401053005652 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 401053005653 Putative esterase; Region: Esterase; pfam00756 401053005654 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 401053005655 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 401053005656 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 401053005657 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 401053005658 RimM N-terminal domain; Region: RimM; pfam01782 401053005659 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 401053005660 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 401053005661 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 401053005662 putative NAD(P) binding site [chemical binding]; other site 401053005663 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 401053005664 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 401053005665 RNA/DNA hybrid binding site [nucleotide binding]; other site 401053005666 active site 401053005667 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 401053005668 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 401053005669 Helix-turn-helix domains; Region: HTH; cl00088 401053005670 Bacterial transcriptional regulator; Region: IclR; pfam01614 401053005671 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 401053005672 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 401053005673 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 401053005674 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 401053005675 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 401053005676 Di-iron ligands [ion binding]; other site 401053005677 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 401053005678 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 401053005679 dimer interface [polypeptide binding]; other site 401053005680 phosphorylation site [posttranslational modification] 401053005681 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 401053005682 ATP binding site [chemical binding]; other site 401053005683 Mg2+ binding site [ion binding]; other site 401053005684 G-X-G motif; other site 401053005685 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053005686 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 401053005687 active site 401053005688 phosphorylation site [posttranslational modification] 401053005689 intermolecular recognition site; other site 401053005690 dimerization interface [polypeptide binding]; other site 401053005691 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 401053005692 DNA binding site [nucleotide binding] 401053005693 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 401053005694 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 401053005695 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 401053005696 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 401053005697 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 401053005698 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 401053005699 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 401053005700 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053005701 Walker A/P-loop; other site 401053005702 ATP binding site [chemical binding]; other site 401053005703 Q-loop/lid; other site 401053005704 ABC transporter signature motif; other site 401053005705 Walker B; other site 401053005706 D-loop; other site 401053005707 H-loop/switch region; other site 401053005708 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 401053005709 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 401053005710 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 401053005711 active site residue [active] 401053005712 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 401053005713 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 401053005714 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 401053005715 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053005716 putative oxidoreductase; Provisional; Region: PRK11579 401053005717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005718 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 401053005719 putative oxidoreductase; Provisional; Region: PRK11579 401053005720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005721 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 401053005722 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 401053005723 heterotetramer interface [polypeptide binding]; other site 401053005724 active site pocket [active] 401053005725 cleavage site 401053005726 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 401053005727 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 401053005728 dimer interface [polypeptide binding]; other site 401053005729 TPP-binding site [chemical binding]; other site 401053005730 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 401053005731 TPP-binding site [chemical binding]; other site 401053005732 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 401053005733 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 401053005734 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053005735 NAD binding site [chemical binding]; other site 401053005736 putative substrate binding site 2 [chemical binding]; other site 401053005737 putative substrate binding site 1 [chemical binding]; other site 401053005738 active site 401053005739 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 401053005740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005741 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 401053005742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005743 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053005744 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 401053005745 putative ADP-binding pocket [chemical binding]; other site 401053005746 putative acyl transferase; Provisional; Region: PRK10502 401053005747 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 401053005748 putative trimer interface [polypeptide binding]; other site 401053005749 putative CoA binding site [chemical binding]; other site 401053005750 Response regulator receiver domain; Region: Response_reg; pfam00072 401053005751 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 401053005752 active site 401053005753 phosphorylation site [posttranslational modification] 401053005754 intermolecular recognition site; other site 401053005755 dimerization interface [polypeptide binding]; other site 401053005756 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 401053005757 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 401053005758 Walker A/P-loop; other site 401053005759 ATP binding site [chemical binding]; other site 401053005760 Q-loop/lid; other site 401053005761 ABC transporter signature motif; other site 401053005762 Walker B; other site 401053005763 D-loop; other site 401053005764 H-loop/switch region; other site 401053005765 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 401053005766 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 401053005767 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 401053005768 dimer interface [polypeptide binding]; other site 401053005769 conserved gate region; other site 401053005770 putative PBP binding loops; other site 401053005771 ABC-ATPase subunit interface; other site 401053005772 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 401053005773 dimer interface [polypeptide binding]; other site 401053005774 conserved gate region; other site 401053005775 putative PBP binding loops; other site 401053005776 ABC-ATPase subunit interface; other site 401053005777 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 401053005778 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 401053005779 Alpha amylase catalytic domain found in archaeal, bacterial, and plant Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_plant_AmyA; cd11314 401053005780 active site 401053005781 Ca binding site [ion binding]; other site 401053005782 catalytic site [active] 401053005783 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 401053005784 MASE1; Region: MASE1; pfam05231 401053005785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053005786 metal binding site [ion binding]; metal-binding site 401053005787 active site 401053005788 I-site; other site 401053005789 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053005790 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053005791 FtsX-like permease family; Region: FtsX; cl15850 401053005792 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053005793 FtsX-like permease family; Region: FtsX; cl15850 401053005794 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053005795 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053005796 FtsX-like permease family; Region: FtsX; cl15850 401053005797 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053005798 FtsX-like permease family; Region: FtsX; cl15850 401053005799 Helix-turn-helix domains; Region: HTH; cl00088 401053005800 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 401053005801 putative active site [active] 401053005802 catalytic triad [active] 401053005803 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 401053005804 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053005805 classical (c) SDRs; Region: SDR_c; cd05233 401053005806 NAD(P) binding site [chemical binding]; other site 401053005807 active site 401053005808 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005809 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 401053005810 oligomerisation interface [polypeptide binding]; other site 401053005811 mobile loop; other site 401053005812 roof hairpin; other site 401053005813 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 401053005814 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 401053005815 ring oligomerisation interface [polypeptide binding]; other site 401053005816 ATP/Mg binding site [chemical binding]; other site 401053005817 stacking interactions; other site 401053005818 hinge regions; other site 401053005819 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053005820 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 401053005821 DinB superfamily; Region: DinB_2; pfam12867 401053005822 Domain of unknown function (DUF305); Region: DUF305; cl15795 401053005823 Low affinity iron permease; Region: Iron_permease; cl12096 401053005824 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005825 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; cl00284 401053005826 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 401053005827 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 401053005828 tetramer interface [polypeptide binding]; other site 401053005829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053005830 catalytic residue [active] 401053005831 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 401053005832 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 401053005833 FeS/SAM binding site; other site 401053005834 HemN C-terminal domain; Region: HemN_C; pfam06969 401053005835 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 401053005836 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 401053005837 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 401053005838 Walker A/P-loop; other site 401053005839 ATP binding site [chemical binding]; other site 401053005840 Q-loop/lid; other site 401053005841 ABC transporter signature motif; other site 401053005842 Walker B; other site 401053005843 D-loop; other site 401053005844 H-loop/switch region; other site 401053005845 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 401053005846 Phosphate transporter family; Region: PHO4; cl00396 401053005847 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 401053005848 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 401053005849 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 401053005850 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 401053005851 Zn binding site [ion binding]; other site 401053005852 TPR repeat; Region: TPR_11; pfam13414 401053005853 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 401053005854 TPR motif; other site 401053005855 binding surface 401053005856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053005857 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 401053005858 SurA N-terminal domain; Region: SurA_N_3; cl07813 401053005859 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 401053005860 PPIC-type PPIASE domain; Region: Rotamase; cl08278 401053005861 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 401053005862 active site 401053005863 catalytic site [active] 401053005864 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 401053005865 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 401053005866 Immunoglobulin domain; Region: Ig; cl11960 401053005867 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 401053005868 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 401053005869 N-terminal plug; other site 401053005870 ligand-binding site [chemical binding]; other site 401053005871 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 401053005872 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 401053005873 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053005874 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 401053005875 active site 401053005876 phosphorylation site [posttranslational modification] 401053005877 intermolecular recognition site; other site 401053005878 dimerization interface [polypeptide binding]; other site 401053005879 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 401053005880 DNA binding site [nucleotide binding] 401053005881 Protein of unknown function (DUF454); Region: DUF454; cl01063 401053005882 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 401053005883 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 401053005884 dimer interface [polypeptide binding]; other site 401053005885 phosphorylation site [posttranslational modification] 401053005886 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 401053005887 ATP binding site [chemical binding]; other site 401053005888 Mg2+ binding site [ion binding]; other site 401053005889 G-X-G motif; other site 401053005890 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 401053005891 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 401053005892 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 401053005893 dimer interface [polypeptide binding]; other site 401053005894 phosphorylation site [posttranslational modification] 401053005895 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 401053005896 ATP binding site [chemical binding]; other site 401053005897 G-X-G motif; other site 401053005898 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053005899 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 401053005900 active site 401053005901 phosphorylation site [posttranslational modification] 401053005902 intermolecular recognition site; other site 401053005903 dimerization interface [polypeptide binding]; other site 401053005904 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 401053005905 DNA binding site [nucleotide binding] 401053005906 Uncharacterized conserved protein [Function unknown]; Region: COG3391 401053005907 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005908 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 401053005909 active site 401053005910 metal binding site [ion binding]; metal-binding site 401053005911 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 401053005912 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053005913 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 401053005914 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 401053005915 Cupin domain; Region: Cupin_2; cl09118 401053005916 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 401053005917 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053005918 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005919 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053005920 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 401053005921 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053005922 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 401053005923 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 401053005924 Putative zinc-finger; Region: zf-HC2; cl15806 401053005925 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 401053005926 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053005927 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 401053005928 DNA binding residues [nucleotide binding] 401053005929 DoxX; Region: DoxX; cl00976 401053005930 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 401053005931 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 401053005932 Protein of unknown function (DUF692); Region: DUF692; cl01263 401053005933 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 401053005934 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 401053005935 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 401053005936 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005937 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 401053005938 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053005939 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 401053005940 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053005941 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 401053005942 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005943 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; cl00284 401053005944 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 401053005945 active site 401053005946 Zn binding site [ion binding]; other site 401053005947 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 401053005948 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 401053005949 substrate binding site [chemical binding]; other site 401053005950 dimer interface [polypeptide binding]; other site 401053005951 ATP binding site [chemical binding]; other site 401053005952 Ureide permease; Region: Ureide_permease; pfam07168 401053005953 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005954 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; cl00284 401053005955 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 401053005956 Transcriptional regulators [Transcription]; Region: PurR; COG1609 401053005957 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 401053005958 DNA binding site [nucleotide binding] 401053005959 domain linker motif; other site 401053005960 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 401053005961 dimerization interface [polypeptide binding]; other site 401053005962 ligand binding site [chemical binding]; other site 401053005963 Helix-turn-helix domains; Region: HTH; cl00088 401053005964 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053005965 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053005966 FtsX-like permease family; Region: FtsX; cl15850 401053005967 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053005968 FtsX-like permease family; Region: FtsX; cl15850 401053005969 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053005970 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 401053005971 active site 401053005972 phosphorylation site [posttranslational modification] 401053005973 intermolecular recognition site; other site 401053005974 dimerization interface [polypeptide binding]; other site 401053005975 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 401053005976 DNA binding site [nucleotide binding] 401053005977 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 401053005978 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 401053005979 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 401053005980 dimer interface [polypeptide binding]; other site 401053005981 phosphorylation site [posttranslational modification] 401053005982 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 401053005983 ATP binding site [chemical binding]; other site 401053005984 Mg2+ binding site [ion binding]; other site 401053005985 G-X-G motif; other site 401053005986 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053005987 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 401053005988 structural tetrad; other site 401053005989 PQQ-like domain; Region: PQQ_2; pfam13360 401053005990 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 401053005991 Cytokine receptor motif; other site 401053005992 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 401053005993 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 401053005994 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 401053005995 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 401053005996 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 401053005997 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 401053005998 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 401053005999 dimer interface [polypeptide binding]; other site 401053006000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053006001 catalytic residue [active] 401053006002 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053006003 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 401053006004 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 401053006005 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 401053006006 active site 401053006007 Zn binding site [ion binding]; other site 401053006008 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053006009 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 401053006010 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053006011 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 401053006012 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053006013 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 401053006014 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053006015 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053006016 homodimer interface [polypeptide binding]; other site 401053006017 active site 401053006018 TDP-binding site; other site 401053006019 acceptor substrate-binding pocket; other site 401053006020 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053006021 Helix-turn-helix domains; Region: HTH; cl00088 401053006022 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 401053006023 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053006024 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 401053006025 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 401053006026 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 401053006027 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053006028 Helix-turn-helix domains; Region: HTH; cl00088 401053006029 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053006030 classical (c) SDRs; Region: SDR_c; cd05233 401053006031 NAD(P) binding site [chemical binding]; other site 401053006032 active site 401053006033 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 401053006034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006035 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 401053006036 Cupin domain; Region: Cupin_2; cl09118 401053006037 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053006038 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 401053006039 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053006040 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053006041 classical (c) SDRs; Region: SDR_c; cd05233 401053006042 NAD(P) binding site [chemical binding]; other site 401053006043 active site 401053006044 Glycosyl hydrolases family 32 N-terminal domain; Region: Glyco_hydro_32N; pfam00251 401053006045 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 401053006046 substrate binding [chemical binding]; other site 401053006047 active site 401053006048 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 401053006049 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 401053006050 putative substrate binding site [chemical binding]; other site 401053006051 putative ATP binding site [chemical binding]; other site 401053006052 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 401053006053 active site 401053006054 catalytic triad [active] 401053006055 oxyanion hole [active] 401053006056 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 401053006057 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 401053006058 substrate binding pocket [chemical binding]; other site 401053006059 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 401053006060 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 401053006061 active site 401053006062 catalytic triad [active] 401053006063 oxyanion hole [active] 401053006064 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 401053006065 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 401053006066 Metal-binding active site; metal-binding site 401053006067 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 401053006068 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 401053006069 substrate binding pocket [chemical binding]; other site 401053006070 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 401053006071 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 401053006073 DNA-binding site [nucleotide binding]; DNA binding site 401053006074 Transcriptional regulators [Transcription]; Region: PurR; COG1609 401053006075 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 401053006076 ligand binding site [chemical binding]; other site 401053006077 dimerization interface [polypeptide binding]; other site 401053006078 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 401053006079 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 401053006080 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 401053006081 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 401053006082 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 401053006083 Protein of unknown function, DUF486; Region: DUF486; cl01236 401053006084 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053006085 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 401053006086 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053006087 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053006088 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 401053006089 S-adenosylmethionine binding site [chemical binding]; other site 401053006090 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 401053006091 nucleotide binding site [chemical binding]; other site 401053006092 substrate binding site [chemical binding]; other site 401053006093 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 401053006094 nucleotide binding site [chemical binding]; other site 401053006095 substrate binding site [chemical binding]; other site 401053006096 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 401053006097 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 401053006098 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 401053006099 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 401053006100 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 401053006101 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 401053006102 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 401053006103 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 401053006104 Cytochrome c; Region: Cytochrom_C; cl11414 401053006105 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006106 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006107 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006108 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006109 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006110 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006111 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 401053006112 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 401053006113 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 401053006114 ligand binding site [chemical binding]; other site 401053006115 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006116 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006117 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006118 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006119 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006120 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006121 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006122 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006123 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006124 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006125 Bacterial Ig-like domain; Region: Big_5; cl01012 401053006126 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 401053006127 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 401053006128 DNA binding site [nucleotide binding] 401053006129 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 401053006130 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 401053006131 TPR motif; other site 401053006132 binding surface 401053006133 Family description; Region: VCBS; pfam13517 401053006134 Family description; Region: VCBS; pfam13517 401053006135 Family description; Region: VCBS; pfam13517 401053006136 Family description; Region: VCBS; pfam13517 401053006137 Family description; Region: VCBS; pfam13517 401053006138 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 401053006139 peptidase domain interface [polypeptide binding]; other site 401053006140 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 401053006141 active site 401053006142 catalytic triad [active] 401053006143 calcium binding site [ion binding]; other site 401053006144 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 401053006145 non-specific DNA binding site [nucleotide binding]; other site 401053006146 salt bridge; other site 401053006147 sequence-specific DNA binding site [nucleotide binding]; other site 401053006148 HipA N-terminal domain; Region: Couple_hipA; cl11853 401053006149 HipA-like N-terminal domain; Region: HipA_N; pfam07805 401053006150 HipA-like C-terminal domain; Region: HipA_C; pfam07804 401053006151 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053006152 Helix-turn-helix domains; Region: HTH; cl00088 401053006153 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 401053006154 putative catalytic residues [active] 401053006155 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 401053006156 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 401053006157 Major Facilitator Superfamily; Region: MFS_1; pfam07690 401053006158 putative substrate translocation pore; other site 401053006159 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 401053006160 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053006161 DoxX; Region: DoxX; cl00976 401053006162 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 401053006163 Helix-turn-helix domains; Region: HTH; cl00088 401053006164 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 401053006165 dimerization interface [polypeptide binding]; other site 401053006166 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 401053006167 Int/Topo IB signature motif; other site 401053006168 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 401053006169 Helix-turn-helix domains; Region: HTH; cl00088 401053006170 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053006171 classical (c) SDRs; Region: SDR_c; cd05233 401053006172 NAD(P) binding site [chemical binding]; other site 401053006173 active site 401053006174 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 401053006175 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 401053006176 NADP binding site [chemical binding]; other site 401053006177 dimer interface [polypeptide binding]; other site 401053006178 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 401053006179 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 401053006180 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 401053006181 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 401053006182 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053006183 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 401053006184 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 401053006185 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 401053006186 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 401053006187 active site 401053006188 catalytic tetrad [active] 401053006189 Cupin domain; Region: Cupin_2; cl09118 401053006190 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 401053006191 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 401053006192 putative NAD(P) binding site [chemical binding]; other site 401053006193 putative substrate binding site [chemical binding]; other site 401053006194 catalytic Zn binding site [ion binding]; other site 401053006195 structural Zn binding site [ion binding]; other site 401053006196 dimer interface [polypeptide binding]; other site 401053006197 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 401053006198 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 401053006199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006200 NAD(P) binding site [chemical binding]; other site 401053006201 active site 401053006202 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 401053006203 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 401053006204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053006205 ParB-like nuclease domain; Region: ParBc; cl02129 401053006206 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 401053006207 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 401053006208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053006209 AAA domain; Region: AAA_21; pfam13304 401053006210 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053006211 Walker B; other site 401053006212 D-loop; other site 401053006213 H-loop/switch region; other site 401053006214 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; cl00358 401053006215 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 401053006216 non-specific DNA binding site [nucleotide binding]; other site 401053006217 salt bridge; other site 401053006218 sequence-specific DNA binding site [nucleotide binding]; other site 401053006219 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 401053006220 TrwC relaxase; Region: TrwC; pfam08751 401053006221 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 401053006222 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 401053006223 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053006224 Family description; Region: UvrD_C_2; cl15862 401053006225 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053006226 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 401053006227 Walker A motif; other site 401053006228 ATP binding site [chemical binding]; other site 401053006229 Walker B motif; other site 401053006230 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 401053006231 dimer interface [polypeptide binding]; other site 401053006232 ssDNA binding site [nucleotide binding]; other site 401053006233 tetramer (dimer of dimers) interface [polypeptide binding]; other site 401053006234 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 401053006235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053006236 Walker A motif; other site 401053006237 ATP binding site [chemical binding]; other site 401053006238 Walker B motif; other site 401053006239 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 401053006240 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 401053006241 VirB8 protein; Region: VirB8; cl01500 401053006242 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 401053006243 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 401053006244 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 401053006245 VirB7 interaction site; other site 401053006246 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 401053006247 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 401053006248 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 401053006249 Transcriptional regulator [Transcription]; Region: LysR; COG0583 401053006250 Helix-turn-helix domains; Region: HTH; cl00088 401053006251 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 401053006252 dimerization interface [polypeptide binding]; other site 401053006253 substrate binding pocket [chemical binding]; other site 401053006254 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 401053006255 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 401053006256 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 401053006257 DNA binding site [nucleotide binding] 401053006258 Int/Topo IB signature motif; other site 401053006259 active site 401053006260 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 401053006261 Di-iron ligands [ion binding]; other site 401053006262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 401053006263 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 401053006264 dimerization interface [polypeptide binding]; other site 401053006265 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 401053006266 dimer interface [polypeptide binding]; other site 401053006267 phosphorylation site [posttranslational modification] 401053006268 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 401053006269 ATP binding site [chemical binding]; other site 401053006270 Mg2+ binding site [ion binding]; other site 401053006271 G-X-G motif; other site 401053006272 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053006273 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 401053006274 active site 401053006275 phosphorylation site [posttranslational modification] 401053006276 intermolecular recognition site; other site 401053006277 dimerization interface [polypeptide binding]; other site 401053006278 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 401053006279 DNA binding site [nucleotide binding] 401053006280 Sodium:solute symporter family; Region: SSF; cl00456 401053006281 Transcriptional regulators [Transcription]; Region: PurR; COG1609 401053006282 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 401053006283 DNA binding site [nucleotide binding] 401053006284 domain linker motif; other site 401053006285 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 401053006286 dimerization interface [polypeptide binding]; other site 401053006287 ligand binding site [chemical binding]; other site 401053006288 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 401053006289 PAS domain S-box; Region: sensory_box; TIGR00229 401053006290 PAS domain S-box; Region: sensory_box; TIGR00229 401053006291 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 401053006292 putative active site [active] 401053006293 heme pocket [chemical binding]; other site 401053006294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053006295 metal binding site [ion binding]; metal-binding site 401053006296 active site 401053006297 I-site; other site 401053006298 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 401053006299 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 401053006300 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 401053006301 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 401053006302 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 401053006303 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 401053006304 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 401053006305 active site 401053006306 catalytic site [active] 401053006307 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 401053006308 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053006309 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 401053006310 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 401053006311 O-Antigen ligase; Region: Wzy_C; cl04850 401053006312 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 401053006313 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 401053006314 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 401053006315 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 401053006316 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 401053006317 inhibitor-cofactor binding pocket; inhibition site 401053006318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053006319 catalytic residue [active] 401053006320 FlgD Ig-like domain; Region: FlgD_ig; cl15790 401053006321 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 401053006322 FlgD Ig-like domain; Region: FlgD_ig; cl15790 401053006323 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 401053006324 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 401053006325 active site 401053006326 OpgC protein; Region: OpgC_C; cl00792 401053006327 Acyltransferase family; Region: Acyl_transf_3; pfam01757 401053006328 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 401053006329 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 401053006330 putative metal binding site; other site 401053006331 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 401053006332 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 401053006333 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 401053006334 active site 401053006335 Cupin domain; Region: Cupin_2; cl09118 401053006336 OpgC protein; Region: OpgC_C; cl00792 401053006337 Acyltransferase family; Region: Acyl_transf_3; pfam01757 401053006338 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 401053006339 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 401053006340 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 401053006341 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053006342 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 401053006343 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053006344 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 401053006345 OpgC protein; Region: OpgC_C; cl00792 401053006346 FAD binding domain; Region: FAD_binding_4; pfam01565 401053006347 Berberine and berberine like; Region: BBE; pfam08031 401053006348 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 401053006349 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 401053006350 homodimer interface [polypeptide binding]; other site 401053006351 substrate-cofactor binding pocket; other site 401053006352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053006353 catalytic residue [active] 401053006354 YdjC-like protein; Region: YdjC; cl01344 401053006355 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 401053006356 Histidine kinase; Region: His_kinase; pfam06580 401053006357 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 401053006358 ATP binding site [chemical binding]; other site 401053006359 Mg2+ binding site [ion binding]; other site 401053006360 G-X-G motif; other site 401053006361 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 401053006362 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 401053006363 dimerization interface [polypeptide binding]; other site 401053006364 active site 401053006365 Cupin domain; Region: Cupin_2; cl09118 401053006366 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 401053006367 ligand binding site [chemical binding]; other site 401053006368 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14669 401053006369 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 401053006370 GIY-YIG motif/motif A; other site 401053006371 active site 401053006372 catalytic site [active] 401053006373 putative DNA binding site [nucleotide binding]; other site 401053006374 metal binding site [ion binding]; metal-binding site 401053006375 UvrB/uvrC motif; Region: UVR; pfam02151 401053006376 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 401053006377 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 401053006378 DNA binding site [nucleotide binding] 401053006379 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 401053006380 putative active site [active] 401053006381 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 401053006382 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 401053006383 N-terminal plug; other site 401053006384 ligand-binding site [chemical binding]; other site 401053006385 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 401053006386 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 401053006387 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 401053006388 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053006389 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 401053006390 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 401053006391 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006392 Domain of Unknown Function with PDB structure (DUF3863); Region: DUF3863; pfam12979 401053006393 Domain of Unknown Function with PDB structure (DUF3864); Region: DUF3864; pfam12980 401053006394 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 401053006395 Spore germination protein; Region: Spore_permease; cl15802 401053006396 glycogen synthase; Provisional; Region: glgA; PRK00654 401053006397 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 401053006398 ADP-binding pocket [chemical binding]; other site 401053006399 homodimer interface [polypeptide binding]; other site 401053006400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006401 FecR protein; Region: FecR; pfam04773 401053006402 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 401053006403 active site 401053006404 putative DNA-binding cleft [nucleotide binding]; other site 401053006405 dimer interface [polypeptide binding]; other site 401053006406 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 401053006407 ThiS interaction site; other site 401053006408 putative active site [active] 401053006409 tetramer interface [polypeptide binding]; other site 401053006410 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 401053006411 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 401053006412 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 401053006413 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 401053006414 active site 401053006415 catalytic triad [active] 401053006416 oxyanion hole [active] 401053006417 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 401053006418 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 401053006419 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 401053006420 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 401053006421 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 401053006422 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 401053006423 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 401053006424 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 401053006425 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 401053006426 putative dimer interface [polypeptide binding]; other site 401053006427 [2Fe-2S] cluster binding site [ion binding]; other site 401053006428 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 401053006429 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 401053006430 SLBB domain; Region: SLBB; pfam10531 401053006431 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 401053006432 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 401053006433 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 401053006434 catalytic loop [active] 401053006435 iron binding site [ion binding]; other site 401053006436 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 401053006437 4Fe-4S binding domain; Region: Fer4; cl02805 401053006438 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 401053006439 molybdopterin cofactor binding site; other site 401053006440 NADH dehydrogenase; Region: NADHdh; cl00469 401053006441 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 401053006442 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 401053006443 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 401053006444 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 401053006445 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 401053006446 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 401053006447 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 401053006448 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 401053006449 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 401053006450 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 401053006451 ATP synthase subunit C; Region: ATP-synt_C; cl00466 401053006452 ATP synthase A chain; Region: ATP-synt_A; cl00413 401053006453 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 401053006454 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 401053006455 dimer interface [polypeptide binding]; other site 401053006456 putative anticodon binding site; other site 401053006457 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 401053006458 motif 1; other site 401053006459 active site 401053006460 motif 2; other site 401053006461 motif 3; other site 401053006462 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 401053006463 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053006464 putative active site [active] 401053006465 metal binding site [ion binding]; metal-binding site 401053006466 homodimer binding site [polypeptide binding]; other site 401053006467 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 401053006468 Walker A/P-loop; other site 401053006469 ATP binding site [chemical binding]; other site 401053006470 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053006471 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 401053006472 Q-loop/lid; other site 401053006473 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 401053006474 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 401053006475 ABC transporter signature motif; other site 401053006476 Walker B; other site 401053006477 D-loop; other site 401053006478 H-loop/switch region; other site 401053006479 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 401053006480 active site 401053006481 ATP binding site [chemical binding]; other site 401053006482 substrate binding site [chemical binding]; other site 401053006483 Colicin V production protein; Region: Colicin_V; cl00567 401053006484 Helix-turn-helix domains; Region: HTH; cl00088 401053006485 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 401053006486 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 401053006487 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 401053006488 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 401053006489 dimer interface [polypeptide binding]; other site 401053006490 active site 401053006491 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 401053006492 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053006493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006494 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 401053006495 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 401053006496 Helix-turn-helix domains; Region: HTH; cl00088 401053006497 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 401053006498 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006499 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 401053006500 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; cl00284 401053006501 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006502 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053006503 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; cl03075 401053006504 Tropomyosin like; Region: Tropomyosin_1; pfam12718 401053006505 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 401053006506 RNA polymerase sigma factor SigM; Provisional; Region: PRK09644 401053006507 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053006508 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 401053006509 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 401053006510 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 401053006511 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 401053006512 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 401053006513 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 401053006514 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 401053006515 Phosphate transporter family; Region: PHO4; cl00396 401053006516 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 401053006517 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 401053006518 RNA binding site [nucleotide binding]; other site 401053006519 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 401053006520 RNA binding site [nucleotide binding]; other site 401053006521 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 401053006522 RNA binding site [nucleotide binding]; other site 401053006523 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 401053006524 RNA binding site [nucleotide binding]; other site 401053006525 S1_RPS1_repeat_hs4: 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_hs4; cd05692 401053006526 RNA binding site [nucleotide binding]; other site 401053006527 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 401053006528 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 401053006529 putative NAD(P) binding site [chemical binding]; other site 401053006530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006531 NAD(P) binding site [chemical binding]; other site 401053006532 tetracycline repressor protein TetR; Provisional; Region: PRK13756 401053006533 Helix-turn-helix domains; Region: HTH; cl00088 401053006534 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 401053006535 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 401053006536 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 401053006537 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 401053006538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006539 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053006540 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 401053006541 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053006542 OpgC protein; Region: OpgC_C; cl00792 401053006543 Acyltransferase family; Region: Acyl_transf_3; pfam01757 401053006544 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 401053006545 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 401053006546 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 401053006547 Helix-turn-helix domains; Region: HTH; cl00088 401053006548 Helix-turn-helix domains; Region: HTH; cl00088 401053006549 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053006550 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053006551 FtsX-like permease family; Region: FtsX; cl15850 401053006552 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053006553 FtsX-like permease family; Region: FtsX; cl15850 401053006554 sensory histidine kinase AtoS; Provisional; Region: PRK11360 401053006555 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 401053006556 ATP binding site [chemical binding]; other site 401053006557 Mg2+ binding site [ion binding]; other site 401053006558 G-X-G motif; other site 401053006559 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 401053006560 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 401053006561 active site 401053006562 phosphorylation site [posttranslational modification] 401053006563 intermolecular recognition site; other site 401053006564 dimerization interface [polypeptide binding]; other site 401053006565 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 401053006566 Walker A motif; other site 401053006567 ATP binding site [chemical binding]; other site 401053006568 Walker B motif; other site 401053006569 arginine finger; other site 401053006570 Helix-turn-helix domains; Region: HTH; cl00088 401053006571 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053006572 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053006573 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053006574 FtsX-like permease family; Region: FtsX; cl15850 401053006575 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053006576 FtsX-like permease family; Region: FtsX; cl15850 401053006577 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 401053006578 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 401053006579 Walker A/P-loop; other site 401053006580 ATP binding site [chemical binding]; other site 401053006581 Q-loop/lid; other site 401053006582 ABC transporter signature motif; other site 401053006583 Walker B; other site 401053006584 D-loop; other site 401053006585 H-loop/switch region; other site 401053006586 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053006587 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 401053006588 Helix-turn-helix domains; Region: HTH; cl00088 401053006589 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053006590 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053006591 FtsX-like permease family; Region: FtsX; cl15850 401053006592 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053006593 FtsX-like permease family; Region: FtsX; cl15850 401053006594 Helix-turn-helix domains; Region: HTH; cl00088 401053006595 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 401053006596 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 401053006597 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 401053006598 NAD synthetase; Provisional; Region: PRK13981 401053006599 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 401053006600 multimer interface [polypeptide binding]; other site 401053006601 active site 401053006602 catalytic triad [active] 401053006603 protein interface 1 [polypeptide binding]; other site 401053006604 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 401053006605 homodimer interface [polypeptide binding]; other site 401053006606 NAD binding pocket [chemical binding]; other site 401053006607 ATP binding pocket [chemical binding]; other site 401053006608 Mg binding site [ion binding]; other site 401053006609 active-site loop [active] 401053006610 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 401053006611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006612 Bacterial sugar transferase; Region: Bac_transf; cl00939 401053006613 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 401053006614 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 401053006615 Walker A/P-loop; other site 401053006616 ATP binding site [chemical binding]; other site 401053006617 Q-loop/lid; other site 401053006618 ABC transporter signature motif; other site 401053006619 Walker B; other site 401053006620 D-loop; other site 401053006621 H-loop/switch region; other site 401053006622 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 401053006623 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 401053006624 GTP binding site; other site 401053006625 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 401053006626 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 401053006627 metal binding site [ion binding]; metal-binding site 401053006628 putative dimer interface [polypeptide binding]; other site 401053006629 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 401053006630 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 401053006631 S-adenosylmethionine binding site [chemical binding]; other site 401053006632 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 401053006633 active site residue [active] 401053006634 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 401053006635 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 401053006636 active site 401053006637 phosphorylation site [posttranslational modification] 401053006638 intermolecular recognition site; other site 401053006639 dimerization interface [polypeptide binding]; other site 401053006640 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 401053006641 Walker A motif; other site 401053006642 ATP binding site [chemical binding]; other site 401053006643 Walker B motif; other site 401053006644 arginine finger; other site 401053006645 Helix-turn-helix domains; Region: HTH; cl00088 401053006646 sensory histidine kinase AtoS; Provisional; Region: PRK11360 401053006647 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 401053006648 dimer interface [polypeptide binding]; other site 401053006649 phosphorylation site [posttranslational modification] 401053006650 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 401053006651 ATP binding site [chemical binding]; other site 401053006652 Mg2+ binding site [ion binding]; other site 401053006653 G-X-G motif; other site 401053006654 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 401053006655 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 401053006656 SEC-C motif; Region: SEC-C; pfam02810 401053006657 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 401053006658 active site 401053006659 catalytic triad [active] 401053006660 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 401053006661 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 401053006662 Int/Topo IB signature motif; other site 401053006663 active site 401053006664 DNA binding site [nucleotide binding] 401053006665 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 401053006666 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 401053006667 DNA binding site [nucleotide binding] 401053006668 Int/Topo IB signature motif; other site 401053006669 active site 401053006670 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 401053006671 active site 401053006672 metal binding site [ion binding]; metal-binding site 401053006673 homotetramer interface [polypeptide binding]; other site 401053006674 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 401053006675 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 401053006676 dimer interface [polypeptide binding]; other site 401053006677 conserved gate region; other site 401053006678 putative PBP binding loops; other site 401053006679 ABC-ATPase subunit interface; other site 401053006680 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 401053006681 Domain of unknown function DUF21; Region: DUF21; pfam01595 401053006682 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 401053006683 Transporter associated domain; Region: CorC_HlyC; cl08393 401053006684 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 401053006685 catalytic residues [active] 401053006686 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 401053006687 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 401053006688 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 401053006689 active site 401053006690 8-oxo-dGMP binding site [chemical binding]; other site 401053006691 nudix motif; other site 401053006692 metal binding site [ion binding]; metal-binding site 401053006693 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 401053006694 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 401053006695 MgtE intracellular N domain; Region: MgtE_N; cl15244 401053006696 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 401053006697 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 401053006698 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 401053006699 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 401053006700 anti sigma factor interaction site; other site 401053006701 regulatory phosphorylation site [posttranslational modification]; other site 401053006702 LemA family; Region: LemA; cl00742 401053006703 Repair protein; Region: Repair_PSII; cl01535 401053006704 Domain of unknown function (DUF305); Region: DUF305; cl15795 401053006705 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 401053006706 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 401053006707 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 401053006708 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 401053006709 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053006710 Walker A/P-loop; other site 401053006711 ATP binding site [chemical binding]; other site 401053006712 Q-loop/lid; other site 401053006713 ABC transporter signature motif; other site 401053006714 Walker B; other site 401053006715 D-loop; other site 401053006716 H-loop/switch region; other site 401053006717 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 401053006718 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 401053006719 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 401053006720 Cu(I) binding site [ion binding]; other site 401053006721 probable DNA repair protein; Region: TIGR03623 401053006722 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 401053006723 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 401053006724 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 401053006725 Family description; Region: UvrD_C_2; cl15862 401053006726 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006727 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; cl00284 401053006728 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 401053006729 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 401053006730 Ligand binding site; other site 401053006731 Putative Catalytic site; other site 401053006732 DXD motif; other site 401053006733 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 401053006734 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 401053006735 chorismate binding enzyme; Region: Chorismate_bind; cl10555 401053006736 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 401053006737 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 401053006738 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053006739 Walker A/P-loop; other site 401053006740 ATP binding site [chemical binding]; other site 401053006741 Q-loop/lid; other site 401053006742 ABC transporter signature motif; other site 401053006743 Walker B; other site 401053006744 D-loop; other site 401053006745 H-loop/switch region; other site 401053006746 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 401053006747 Transcriptional regulators [Transcription]; Region: GntR; COG1802 401053006748 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 401053006749 DNA-binding site [nucleotide binding]; DNA binding site 401053006750 FCD domain; Region: FCD; cl11656 401053006751 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053006752 metal binding site [ion binding]; metal-binding site 401053006753 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 401053006754 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053006755 metal binding site [ion binding]; metal-binding site 401053006756 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006757 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 401053006758 putative metal binding site [ion binding]; other site 401053006759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006760 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053006761 NAD(P) binding site [chemical binding]; other site 401053006762 active site 401053006763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006764 O-Antigen ligase; Region: Wzy_C; cl04850 401053006765 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 401053006766 Cytochrome c; Region: Cytochrom_C; cl11414 401053006767 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053006768 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 401053006769 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 401053006770 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 401053006771 Bacterial sugar transferase; Region: Bac_transf; cl00939 401053006772 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053006773 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 401053006774 Chain length determinant protein; Region: Wzz; cl15801 401053006775 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 401053006776 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 401053006777 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 401053006778 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 401053006779 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 401053006780 SLBB domain; Region: SLBB; pfam10531 401053006781 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 401053006782 SLBB domain; Region: SLBB; pfam10531 401053006783 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 401053006784 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 401053006785 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 401053006786 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 401053006787 dimerization interface [polypeptide binding]; other site 401053006788 active site 401053006789 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 401053006790 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 401053006791 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 401053006792 active site 401053006793 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 401053006794 translocation protein TolB; Provisional; Region: tolB; PRK03629 401053006795 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053006796 glycosyltransferase, MGT family; Region: MGT; TIGR01426 401053006797 active site 401053006798 TDP-binding site; other site 401053006799 acceptor substrate-binding pocket; other site 401053006800 homodimer interface [polypeptide binding]; other site 401053006801 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 401053006802 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 401053006803 active site 401053006804 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 401053006805 S-adenosylmethionine binding site [chemical binding]; other site 401053006806 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 401053006807 B12 binding site [chemical binding]; other site 401053006808 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 401053006809 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 401053006810 FeS/SAM binding site; other site 401053006811 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 401053006812 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 401053006813 dimerization interface [polypeptide binding]; other site 401053006814 active site 401053006815 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 401053006816 S-adenosylmethionine binding site [chemical binding]; other site 401053006817 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 401053006818 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 401053006819 generic binding surface II; other site 401053006820 ssDNA binding site; other site 401053006821 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 401053006822 ATP binding site [chemical binding]; other site 401053006823 putative Mg++ binding site [ion binding]; other site 401053006824 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 401053006825 nucleotide binding region [chemical binding]; other site 401053006826 ATP-binding site [chemical binding]; other site 401053006827 Response regulator receiver domain; Region: Response_reg; pfam00072 401053006828 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 401053006829 active site 401053006830 phosphorylation site [posttranslational modification] 401053006831 intermolecular recognition site; other site 401053006832 dimerization interface [polypeptide binding]; other site 401053006833 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 401053006834 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 401053006835 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 401053006836 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 401053006837 dimer interface [polypeptide binding]; other site 401053006838 decamer (pentamer of dimers) interface [polypeptide binding]; other site 401053006839 catalytic triad [active] 401053006840 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053006841 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053006842 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053006843 FtsX-like permease family; Region: FtsX; cl15850 401053006844 Helix-turn-helix domains; Region: HTH; cl00088 401053006845 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 401053006846 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 401053006847 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053006848 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 401053006849 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 401053006850 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053006851 Helix-turn-helix domains; Region: HTH; cl00088 401053006852 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 401053006853 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 401053006854 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 401053006855 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 401053006856 metal binding site [ion binding]; metal-binding site 401053006857 substrate binding pocket [chemical binding]; other site 401053006858 Helix-turn-helix domains; Region: HTH; cl00088 401053006859 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 401053006860 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053006861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006862 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 401053006863 NAD(P) binding site [chemical binding]; other site 401053006864 active site 401053006865 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053006866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006867 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 401053006868 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053006869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053006870 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006871 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 401053006872 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053006873 Helix-turn-helix domains; Region: HTH; cl00088 401053006874 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 401053006875 active site 401053006876 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 401053006877 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053006878 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 401053006879 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 401053006880 Putative esterase; Region: Esterase; pfam00756 401053006881 amino acid transporter; Region: 2A0306; TIGR00909 401053006882 Spore germination protein; Region: Spore_permease; cl15802 401053006883 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 401053006884 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 401053006885 putative NAD(P) binding site [chemical binding]; other site 401053006886 catalytic Zn binding site [ion binding]; other site 401053006887 structural Zn binding site [ion binding]; other site 401053006888 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 401053006889 Domain of unknown function (DUF718); Region: DUF718; cl01281 401053006890 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 401053006891 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 401053006892 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 401053006893 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 401053006894 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 401053006895 sugar binding site [chemical binding]; other site 401053006896 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 401053006897 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053006898 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 401053006899 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 401053006900 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 401053006901 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 401053006902 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 401053006903 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 401053006904 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006905 Transcriptional regulators [Transcription]; Region: PurR; COG1609 401053006906 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 401053006907 DNA binding site [nucleotide binding] 401053006908 domain linker motif; other site 401053006909 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 401053006910 ligand binding site [chemical binding]; other site 401053006911 dimerization interface [polypeptide binding]; other site 401053006912 Transcriptional regulator [Transcription]; Region: IclR; COG1414 401053006913 Helix-turn-helix domains; Region: HTH; cl00088 401053006914 Bacterial transcriptional regulator; Region: IclR; pfam01614 401053006915 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 401053006916 dimerization interface [polypeptide binding]; other site 401053006917 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 401053006918 dimer interface [polypeptide binding]; other site 401053006919 phosphorylation site [posttranslational modification] 401053006920 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 401053006921 ATP binding site [chemical binding]; other site 401053006922 Mg2+ binding site [ion binding]; other site 401053006923 G-X-G motif; other site 401053006924 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053006925 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 401053006926 active site 401053006927 phosphorylation site [posttranslational modification] 401053006928 intermolecular recognition site; other site 401053006929 dimerization interface [polypeptide binding]; other site 401053006930 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 401053006931 DNA binding site [nucleotide binding] 401053006932 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 401053006933 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 401053006934 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 401053006935 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 401053006936 Protein export membrane protein; Region: SecD_SecF; cl14618 401053006937 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 401053006938 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 401053006939 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 401053006940 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053006941 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 401053006942 active site 401053006943 metal binding site [ion binding]; metal-binding site 401053006944 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053006945 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 401053006946 peptidase domain interface [polypeptide binding]; other site 401053006947 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 401053006948 active site 401053006949 catalytic triad [active] 401053006950 calcium binding site [ion binding]; other site 401053006951 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 401053006952 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053006953 active site 401053006954 phosphorylation site [posttranslational modification] 401053006955 intermolecular recognition site; other site 401053006956 dimerization interface [polypeptide binding]; other site 401053006957 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 401053006958 DNA binding site [nucleotide binding] 401053006959 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053006960 metal binding site [ion binding]; metal-binding site 401053006961 active site 401053006962 I-site; other site 401053006963 TPR repeat; Region: TPR_11; pfam13414 401053006964 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 401053006965 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 401053006966 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 401053006967 TPR repeat; Region: TPR_11; pfam13414 401053006968 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 401053006969 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 401053006970 Cohesin domain, interaction parter of dockerin; Region: cohesin_like; cd08546 401053006971 dockerin binding interface; other site 401053006972 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006973 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 401053006974 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 401053006975 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006976 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053006977 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 401053006978 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 401053006979 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 401053006980 putative active site [active] 401053006981 putative NTP binding site [chemical binding]; other site 401053006982 putative nucleic acid binding site [nucleotide binding]; other site 401053006983 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 401053006984 Low molecular weight phosphatase family; Region: LMWPc; cd00115 401053006985 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 401053006986 active site 401053006987 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 401053006988 dimerization interface [polypeptide binding]; other site 401053006989 putative DNA binding site [nucleotide binding]; other site 401053006990 putative Zn2+ binding site [ion binding]; other site 401053006991 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 401053006992 Membrane transport protein; Region: Mem_trans; cl09117 401053006993 Helix-turn-helix domains; Region: HTH; cl00088 401053006994 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053006995 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 401053006996 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053006997 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 401053006998 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 401053006999 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 401053007000 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053007001 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 401053007002 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053007003 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007004 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; cl00284 401053007005 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 401053007006 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1689 401053007007 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 401053007008 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053007009 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053007010 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 401053007011 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 401053007012 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 401053007013 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 401053007014 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 401053007015 active site 401053007016 dimer interface [polypeptide binding]; other site 401053007017 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 401053007018 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 401053007019 NADP binding site [chemical binding]; other site 401053007020 active site 401053007021 putative substrate binding site [chemical binding]; other site 401053007022 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 401053007023 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 401053007024 Substrate binding site; other site 401053007025 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 401053007026 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 401053007027 active site 401053007028 catalytic residues [active] 401053007029 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 401053007030 Transcriptional regulators [Transcription]; Region: PurR; COG1609 401053007031 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 401053007032 DNA binding site [nucleotide binding] 401053007033 domain linker motif; other site 401053007034 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 401053007035 dimerization interface [polypeptide binding]; other site 401053007036 ligand binding site [chemical binding]; other site 401053007037 Pectinesterase; Region: Pectinesterase; cl01911 401053007038 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 401053007039 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007040 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 401053007041 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 401053007042 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 401053007043 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 401053007044 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 401053007045 NAD binding site [chemical binding]; other site 401053007046 catalytic Zn binding site [ion binding]; other site 401053007047 structural Zn binding site [ion binding]; other site 401053007048 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053007049 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 401053007050 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 401053007051 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 401053007052 DNA binding site [nucleotide binding] 401053007053 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 401053007054 GtrA-like protein; Region: GtrA; cl00971 401053007055 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 401053007056 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 401053007057 Walker A/P-loop; other site 401053007058 ATP binding site [chemical binding]; other site 401053007059 Q-loop/lid; other site 401053007060 ABC transporter signature motif; other site 401053007061 Walker B; other site 401053007062 D-loop; other site 401053007063 H-loop/switch region; other site 401053007064 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053007065 FtsX-like permease family; Region: FtsX; cl15850 401053007066 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007067 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053007068 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; cl00284 401053007069 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 401053007070 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 401053007071 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 401053007072 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053007073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007074 Uncharacterized conserved protein [Function unknown]; Region: COG5476 401053007075 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 401053007076 MlrC C-terminus; Region: MlrC_C; pfam07171 401053007077 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 401053007078 D-galactonate transporter; Region: 2A0114; TIGR00893 401053007079 putative substrate translocation pore; other site 401053007080 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 401053007081 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 401053007082 active site 401053007083 trimer interface [polypeptide binding]; other site 401053007084 allosteric site; other site 401053007085 active site lid [active] 401053007086 hexamer (dimer of trimers) interface [polypeptide binding]; other site 401053007087 Transcriptional regulators [Transcription]; Region: PurR; COG1609 401053007088 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 401053007089 dimerization interface [polypeptide binding]; other site 401053007090 ligand binding site [chemical binding]; other site 401053007091 Major Facilitator Superfamily; Region: MFS_1; pfam07690 401053007092 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 401053007093 putative substrate translocation pore; other site 401053007094 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 401053007095 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 401053007096 Trp docking motif [polypeptide binding]; other site 401053007097 active site 401053007098 Cytochrome c; Region: Cytochrom_C; cl11414 401053007099 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053007100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007101 Methane oxygenase PmoA; Region: PmoA; pfam14100 401053007102 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 401053007103 Transcriptional regulator [Transcription]; Region: IclR; COG1414 401053007104 Helix-turn-helix domains; Region: HTH; cl00088 401053007105 Bacterial transcriptional regulator; Region: IclR; pfam01614 401053007106 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 401053007107 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 401053007108 catalytic residue [active] 401053007109 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053007110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007111 NAD(P) binding site [chemical binding]; other site 401053007112 active site 401053007113 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 401053007114 Sodium:solute symporter family; Region: SSF; cl00456 401053007115 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 401053007116 active site 401053007117 trimer interface [polypeptide binding]; other site 401053007118 allosteric site; other site 401053007119 active site lid [active] 401053007120 hexamer (dimer of trimers) interface [polypeptide binding]; other site 401053007121 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 401053007122 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 401053007123 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 401053007124 DNA interaction; other site 401053007125 Metal-binding active site; metal-binding site 401053007126 Transcriptional regulators [Transcription]; Region: PurR; COG1609 401053007127 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 401053007128 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 401053007129 dimerization interface [polypeptide binding]; other site 401053007130 ligand binding site [chemical binding]; other site 401053007131 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 401053007132 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 401053007133 active site 401053007134 FMN binding site [chemical binding]; other site 401053007135 substrate binding site [chemical binding]; other site 401053007136 homotetramer interface [polypeptide binding]; other site 401053007137 catalytic residue [active] 401053007138 thioredoxin 2; Provisional; Region: PRK10996 401053007139 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 401053007140 catalytic residues [active] 401053007141 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 401053007142 alpha-glucosidase; Provisional; Region: PRK10137 401053007143 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 401053007144 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053007145 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 401053007146 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053007147 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 401053007148 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 401053007149 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 401053007150 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 401053007151 active site 401053007152 catalytic site [active] 401053007153 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007154 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; cl00284 401053007155 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 401053007156 DNA binding site [nucleotide binding] 401053007157 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 401053007158 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 401053007159 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053007160 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 401053007161 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 401053007162 trimer interface [polypeptide binding]; other site 401053007163 active site 401053007164 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 401053007165 catalytic site [active] 401053007166 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 401053007167 Pectinesterase; Region: Pectinesterase; cl01911 401053007168 TIGR03118 family protein; Region: PEPCTERM_chp_1 401053007169 Helix-turn-helix domains; Region: HTH; cl00088 401053007170 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 401053007171 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 401053007172 ligand binding site [chemical binding]; other site 401053007173 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007174 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; cl00284 401053007175 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 401053007176 Domain of unknown function (DUF718); Region: DUF718; cl01281 401053007177 L-arabinose isomerase [Carbohydrate transport and metabolism]; Region: AraA; COG2160 401053007178 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 401053007179 hexamer (dimer of trimers) interface [polypeptide binding]; other site 401053007180 trimer interface [polypeptide binding]; other site 401053007181 substrate binding site [chemical binding]; other site 401053007182 Mn binding site [ion binding]; other site 401053007183 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007184 Sulfatase; Region: Sulfatase; cl10460 401053007185 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 401053007186 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 401053007187 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 401053007188 Histidine kinase; Region: His_kinase; pfam06580 401053007189 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 401053007190 ATP binding site [chemical binding]; other site 401053007191 Mg2+ binding site [ion binding]; other site 401053007192 G-X-G motif; other site 401053007193 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 401053007194 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 401053007195 active site 401053007196 phosphorylation site [posttranslational modification] 401053007197 intermolecular recognition site; other site 401053007198 dimerization interface [polypeptide binding]; other site 401053007199 LytTr DNA-binding domain; Region: LytTR; cl04498 401053007200 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 401053007201 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 401053007202 Cytochrome c; Region: Cytochrom_C; cl11414 401053007203 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 401053007204 dimerization interface [polypeptide binding]; other site 401053007205 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 401053007206 dimer interface [polypeptide binding]; other site 401053007207 phosphorylation site [posttranslational modification] 401053007208 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 401053007209 ATP binding site [chemical binding]; other site 401053007210 Mg2+ binding site [ion binding]; other site 401053007211 G-X-G motif; other site 401053007212 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053007213 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 401053007214 active site 401053007215 phosphorylation site [posttranslational modification] 401053007216 intermolecular recognition site; other site 401053007217 dimerization interface [polypeptide binding]; other site 401053007218 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 401053007219 DNA binding site [nucleotide binding] 401053007220 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053007221 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053007222 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 401053007223 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 401053007224 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 401053007225 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 401053007226 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 401053007227 active site 401053007228 DNA binding site [nucleotide binding] 401053007229 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053007230 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053007231 metal binding site [ion binding]; metal-binding site 401053007232 active site 401053007233 I-site; other site 401053007234 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 401053007235 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053007236 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 401053007237 DNA binding residues [nucleotide binding] 401053007238 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 401053007239 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 401053007240 active site 401053007241 ATP binding site [chemical binding]; other site 401053007242 substrate binding site [chemical binding]; other site 401053007243 activation loop (A-loop); other site 401053007244 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 401053007245 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 401053007246 oxidoreductase; Provisional; Region: PRK06128 401053007247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007248 NAD(P) binding site [chemical binding]; other site 401053007249 active site 401053007250 PQQ-like domain; Region: PQQ_2; pfam13360 401053007251 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 401053007252 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 401053007253 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 401053007254 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 401053007255 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 401053007256 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 401053007257 active site 401053007258 dimer interface [polypeptide binding]; other site 401053007259 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007260 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 401053007261 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; cl00284 401053007262 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; cl00284 401053007263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007264 ectoine utilization protein EutC; Validated; Region: PRK08291 401053007265 hypothetical protein; Provisional; Region: PRK06815 401053007266 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 401053007267 tetramer interface [polypeptide binding]; other site 401053007268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053007269 catalytic residue [active] 401053007270 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 401053007271 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 401053007272 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 401053007273 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 401053007274 dimer interface [polypeptide binding]; other site 401053007275 conserved gate region; other site 401053007276 putative PBP binding loops; other site 401053007277 ABC-ATPase subunit interface; other site 401053007278 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 401053007279 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 401053007280 Walker A/P-loop; other site 401053007281 ATP binding site [chemical binding]; other site 401053007282 Q-loop/lid; other site 401053007283 ABC transporter signature motif; other site 401053007284 Walker B; other site 401053007285 D-loop; other site 401053007286 H-loop/switch region; other site 401053007287 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 401053007288 Walker A/P-loop; other site 401053007289 ATP binding site [chemical binding]; other site 401053007290 Q-loop/lid; other site 401053007291 ABC transporter signature motif; other site 401053007292 Walker B; other site 401053007293 D-loop; other site 401053007294 H-loop/switch region; other site 401053007295 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 401053007296 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053007297 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 401053007298 PrpF protein; Region: PrpF; pfam04303 401053007299 aconitate hydratase; Validated; Region: PRK09277 401053007300 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 401053007301 substrate binding site [chemical binding]; other site 401053007302 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 401053007303 ligand binding site [chemical binding]; other site 401053007304 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 401053007305 substrate binding site [chemical binding]; other site 401053007306 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 401053007307 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 401053007308 Tannase and feruloyl esterase; Region: Tannase; pfam07519 401053007309 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 401053007310 active site 401053007311 catalytic triad [active] 401053007312 oxyanion hole [active] 401053007313 aconitate hydratase; Validated; Region: PRK09277 401053007314 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 401053007315 substrate binding site [chemical binding]; other site 401053007316 ligand binding site [chemical binding]; other site 401053007317 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 401053007318 substrate binding site [chemical binding]; other site 401053007319 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 401053007320 DNA-binding site [nucleotide binding]; DNA binding site 401053007321 Transcriptional regulators [Transcription]; Region: GntR; COG1802 401053007322 Helix-turn-helix domains; Region: HTH; cl00088 401053007323 DNA-binding site [nucleotide binding]; DNA binding site 401053007324 FCD domain; Region: FCD; cl11656 401053007325 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 401053007326 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 401053007327 putative substrate translocation pore; other site 401053007328 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 401053007329 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 401053007330 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 401053007331 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 401053007332 DNA binding residues [nucleotide binding] 401053007333 dimerization interface [polypeptide binding]; other site 401053007334 transaminase; Validated; Region: PRK07324 401053007335 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 401053007336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053007337 homodimer interface [polypeptide binding]; other site 401053007338 catalytic residue [active] 401053007339 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 401053007340 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053007341 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053007342 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053007343 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 401053007344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007345 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 401053007346 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 401053007347 active site 401053007348 NAD binding site [chemical binding]; other site 401053007349 metal binding site [ion binding]; metal-binding site 401053007350 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 401053007351 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 401053007352 Sodium:solute symporter family; Region: SSF; cl00456 401053007353 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 401053007354 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 401053007355 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 401053007356 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; cl01922 401053007357 BNR repeat-like domain; Region: BNR_2; pfam13088 401053007358 Transcriptional regulator [Transcription]; Region: IclR; COG1414 401053007359 Helix-turn-helix domains; Region: HTH; cl00088 401053007360 Bacterial transcriptional regulator; Region: IclR; pfam01614 401053007361 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007362 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; cl00284 401053007363 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 401053007364 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053007365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053007366 choline dehydrogenase; Validated; Region: PRK02106 401053007367 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 401053007368 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053007369 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 401053007370 Helix-turn-helix domains; Region: HTH; cl00088 401053007371 short chain dehydrogenase; Provisional; Region: PRK08263 401053007372 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 401053007373 NADP binding site [chemical binding]; other site 401053007374 active site 401053007375 steroid binding site; other site 401053007376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007377 NAD(P) binding site [chemical binding]; other site 401053007378 active site 401053007379 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 401053007380 DNA binding site [nucleotide binding] 401053007381 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 401053007382 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 401053007383 TPR motif; other site 401053007384 binding surface 401053007385 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 401053007386 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053007387 Helix-turn-helix domains; Region: HTH; cl00088 401053007388 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 401053007389 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 401053007390 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 401053007391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007392 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053007393 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 401053007394 Ligand binding site; other site 401053007395 Ligand binding site; other site 401053007396 Ligand binding site; other site 401053007397 Putative Catalytic site; other site 401053007398 DXD motif; other site 401053007399 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 401053007400 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 401053007401 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 401053007402 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 401053007403 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007404 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; cl00284 401053007405 Sulfatase; Region: Sulfatase; cl10460 401053007406 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 401053007407 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 401053007408 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 401053007409 DNA-binding site [nucleotide binding]; DNA binding site 401053007410 UTRA domain; Region: UTRA; cl01230 401053007411 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 401053007412 substrate binding site [chemical binding]; other site 401053007413 ATP binding site [chemical binding]; other site 401053007414 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007415 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 401053007416 structural tetrad; other site 401053007417 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007418 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; cl00284 401053007419 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 401053007420 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 401053007421 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 401053007422 dimer interface [polypeptide binding]; other site 401053007423 phosphorylation site [posttranslational modification] 401053007424 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 401053007425 ATP binding site [chemical binding]; other site 401053007426 Mg2+ binding site [ion binding]; other site 401053007427 G-X-G motif; other site 401053007428 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053007429 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 401053007430 active site 401053007431 phosphorylation site [posttranslational modification] 401053007432 intermolecular recognition site; other site 401053007433 dimerization interface [polypeptide binding]; other site 401053007434 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 401053007435 DNA binding site [nucleotide binding] 401053007436 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 401053007437 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 401053007438 active site 401053007439 phosphorylation site [posttranslational modification] 401053007440 intermolecular recognition site; other site 401053007441 dimerization interface [polypeptide binding]; other site 401053007442 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 401053007443 Walker A motif; other site 401053007444 ATP binding site [chemical binding]; other site 401053007445 Walker B motif; other site 401053007446 arginine finger; other site 401053007447 Helix-turn-helix domains; Region: HTH; cl00088 401053007448 sensory histidine kinase AtoS; Provisional; Region: PRK11360 401053007449 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 401053007450 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 401053007451 dimer interface [polypeptide binding]; other site 401053007452 phosphorylation site [posttranslational modification] 401053007453 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 401053007454 ATP binding site [chemical binding]; other site 401053007455 Mg2+ binding site [ion binding]; other site 401053007456 G-X-G motif; other site 401053007457 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 401053007458 Major Facilitator Superfamily; Region: MFS_1; pfam07690 401053007459 putative substrate translocation pore; other site 401053007460 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 401053007461 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053007462 active site 401053007463 metal binding site [ion binding]; metal-binding site 401053007464 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 401053007465 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 401053007466 transmembrane helices; other site 401053007467 Protein of unknown function, DUF606; Region: DUF606; cl01273 401053007468 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 401053007469 putative active site [active] 401053007470 PAS fold; Region: PAS_3; pfam08447 401053007471 heme pocket [chemical binding]; other site 401053007472 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 401053007473 dimer interface [polypeptide binding]; other site 401053007474 phosphorylation site [posttranslational modification] 401053007475 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 401053007476 ATP binding site [chemical binding]; other site 401053007477 Mg2+ binding site [ion binding]; other site 401053007478 G-X-G motif; other site 401053007479 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 401053007480 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 401053007481 dimerization interface [polypeptide binding]; other site 401053007482 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 401053007483 dimer interface [polypeptide binding]; other site 401053007484 phosphorylation site [posttranslational modification] 401053007485 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 401053007486 ATP binding site [chemical binding]; other site 401053007487 Mg2+ binding site [ion binding]; other site 401053007488 G-X-G motif; other site 401053007489 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053007490 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 401053007491 active site 401053007492 phosphorylation site [posttranslational modification] 401053007493 intermolecular recognition site; other site 401053007494 dimerization interface [polypeptide binding]; other site 401053007495 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 401053007496 DNA binding site [nucleotide binding] 401053007497 Cytochrome c; Region: Cytochrom_C; cl11414 401053007498 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007499 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 401053007500 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 401053007501 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053007502 YceI-like domain; Region: YceI; cl01001 401053007503 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 401053007504 active site 401053007505 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 401053007506 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 401053007507 ligand binding site [chemical binding]; other site 401053007508 flexible hinge region; other site 401053007509 Helix-turn-helix domains; Region: HTH; cl00088 401053007510 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 401053007511 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 401053007512 additional DNA contacts [nucleotide binding]; other site 401053007513 mismatch recognition site; other site 401053007514 active site 401053007515 zinc binding site [ion binding]; other site 401053007516 DNA intercalation site [nucleotide binding]; other site 401053007517 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 401053007518 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 401053007519 DNA binding site [nucleotide binding] 401053007520 active site 401053007521 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 401053007522 endonuclease III; Region: ENDO3c; smart00478 401053007523 minor groove reading motif; other site 401053007524 helix-hairpin-helix signature motif; other site 401053007525 substrate binding pocket [chemical binding]; other site 401053007526 active site 401053007527 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 401053007528 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 401053007529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053007530 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 401053007531 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 401053007532 DNA binding site [nucleotide binding] 401053007533 active site 401053007534 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 401053007535 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 401053007536 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 401053007537 Cupin domain; Region: Cupin_2; cl09118 401053007538 Helix-turn-helix domain; Region: HTH_18; pfam12833 401053007539 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 401053007540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007541 Transposase; Region: DEDD_Tnp_IS110; pfam01548 401053007542 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 401053007543 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 401053007544 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 401053007545 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 401053007546 Protein of unknown function (DUF433); Region: DUF433; cl01030 401053007547 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 401053007548 Helix-turn-helix domains; Region: HTH; cl00088 401053007549 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053007550 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 401053007551 dimer interface [polypeptide binding]; other site 401053007552 [2Fe-2S] cluster binding site [ion binding]; other site 401053007553 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 401053007554 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 401053007555 putative substrate translocation pore; other site 401053007556 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 401053007557 putative substrate translocation pore; other site 401053007558 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 401053007559 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 401053007560 Transcriptional regulator [Transcription]; Region: LysR; COG0583 401053007561 Helix-turn-helix domains; Region: HTH; cl00088 401053007562 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 401053007563 putative substrate binding pocket [chemical binding]; other site 401053007564 putative dimerization interface [polypeptide binding]; other site 401053007565 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 401053007566 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 401053007567 FAD binding pocket [chemical binding]; other site 401053007568 FAD binding motif [chemical binding]; other site 401053007569 phosphate binding motif [ion binding]; other site 401053007570 NAD binding pocket [chemical binding]; other site 401053007571 Cupin domain; Region: Cupin_2; cl09118 401053007572 Helix-turn-helix domain; Region: HTH_18; pfam12833 401053007573 Sel1 repeat; Region: Sel1; cl02723 401053007574 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 401053007575 Sel1 repeat; Region: Sel1; cl02723 401053007576 Sel1 repeat; Region: Sel1; cl02723 401053007577 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 401053007578 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 401053007579 N-terminal plug; other site 401053007580 ligand-binding site [chemical binding]; other site 401053007581 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 401053007582 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 401053007583 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 401053007584 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 401053007585 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 401053007586 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 401053007587 PAS fold; Region: PAS_4; pfam08448 401053007588 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 401053007589 putative active site [active] 401053007590 heme pocket [chemical binding]; other site 401053007591 GAF domain; Region: GAF_2; pfam13185 401053007592 GAF domain; Region: GAF; cl15785 401053007593 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 401053007594 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 401053007595 putative active site [active] 401053007596 heme pocket [chemical binding]; other site 401053007597 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 401053007598 dimer interface [polypeptide binding]; other site 401053007599 phosphorylation site [posttranslational modification] 401053007600 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 401053007601 ATP binding site [chemical binding]; other site 401053007602 Mg2+ binding site [ion binding]; other site 401053007603 G-X-G motif; other site 401053007604 Transposase domain (DUF772); Region: DUF772; cl15789 401053007605 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 401053007606 PAS fold; Region: PAS_3; pfam08447 401053007607 putative active site [active] 401053007608 heme pocket [chemical binding]; other site 401053007609 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053007610 metal binding site [ion binding]; metal-binding site 401053007611 active site 401053007612 I-site; other site 401053007613 ParB-like nuclease domain; Region: ParBc; cl02129 401053007614 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 401053007615 AMP-binding enzyme; Region: AMP-binding; cl15778 401053007616 TIR domain; Region: TIR_2; cl15770 401053007617 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 401053007618 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; cl09741 401053007619 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 401053007620 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 401053007621 active site 401053007622 NTP binding site [chemical binding]; other site 401053007623 metal binding triad [ion binding]; metal-binding site 401053007624 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 401053007625 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 401053007626 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 401053007627 Walker A motif; other site 401053007628 ATP binding site [chemical binding]; other site 401053007629 Walker B motif; other site 401053007630 arginine finger; other site 401053007631 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 401053007632 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 401053007633 non-specific DNA binding site [nucleotide binding]; other site 401053007634 salt bridge; other site 401053007635 sequence-specific DNA binding site [nucleotide binding]; other site 401053007636 Domain of unknown function (DUF955); Region: DUF955; cl01076 401053007637 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 401053007638 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 401053007639 TrwC relaxase; Region: TrwC; pfam08751 401053007640 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 401053007641 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053007642 Family description; Region: UvrD_C_2; cl15862 401053007643 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 401053007644 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053007645 Walker A motif; other site 401053007646 ATP binding site [chemical binding]; other site 401053007647 Walker B motif; other site 401053007648 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 401053007649 dimer interface [polypeptide binding]; other site 401053007650 ssDNA binding site [nucleotide binding]; other site 401053007651 tetramer (dimer of dimers) interface [polypeptide binding]; other site 401053007652 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 401053007653 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053007654 Walker A motif; other site 401053007655 ATP binding site [chemical binding]; other site 401053007656 Walker B motif; other site 401053007657 VirB8 protein; Region: VirB8; cl01500 401053007658 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 401053007659 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 401053007660 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 401053007661 VirB7 interaction site; other site 401053007662 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 401053007663 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 401053007664 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 401053007665 Helix-turn-helix domains; Region: HTH; cl00088 401053007666 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 401053007667 dimerization interface [polypeptide binding]; other site 401053007668 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 401053007669 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 401053007670 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 401053007671 DNA binding site [nucleotide binding] 401053007672 Int/Topo IB signature motif; other site 401053007673 active site 401053007674 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 401053007675 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053007676 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 401053007677 DNA binding residues [nucleotide binding] 401053007678 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 401053007679 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 401053007680 Ligand binding site; other site 401053007681 Ligand binding site; other site 401053007682 Ligand binding site; other site 401053007683 Putative Catalytic site; other site 401053007684 DXD motif; other site 401053007685 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 401053007686 tandem repeat interface [polypeptide binding]; other site 401053007687 oligomer interface [polypeptide binding]; other site 401053007688 active site residues [active] 401053007689 Transposase; Region: DEDD_Tnp_IS110; pfam01548 401053007690 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 401053007691 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 401053007692 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 401053007693 IHF dimer interface [polypeptide binding]; other site 401053007694 IHF - DNA interface [nucleotide binding]; other site 401053007695 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 401053007696 active site 401053007697 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 401053007698 catalytic triad [active] 401053007699 metal binding site [ion binding]; metal-binding site 401053007700 conserved cis-peptide bond; other site 401053007701 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 401053007702 non-specific DNA binding site [nucleotide binding]; other site 401053007703 salt bridge; other site 401053007704 sequence-specific DNA binding site [nucleotide binding]; other site 401053007705 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; cl00230 401053007706 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 401053007707 catalytic residue [active] 401053007708 putative FPP diphosphate binding site; other site 401053007709 putative FPP binding hydrophobic cleft; other site 401053007710 dimer interface [polypeptide binding]; other site 401053007711 putative IPP diphosphate binding site; other site 401053007712 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 401053007713 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 401053007714 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 401053007715 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 401053007716 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 401053007717 zinc metallopeptidase RseP; Provisional; Region: PRK10779 401053007718 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 401053007719 active site 401053007720 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 401053007721 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 401053007722 protein binding site [polypeptide binding]; other site 401053007723 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 401053007724 putative substrate binding region [chemical binding]; other site 401053007725 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 401053007726 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 401053007727 homotrimer interaction site [polypeptide binding]; other site 401053007728 putative active site [active] 401053007729 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 401053007730 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 401053007731 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 401053007732 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 401053007733 active site 401053007734 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053007735 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 401053007736 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 401053007737 substrate binding pocket [chemical binding]; other site 401053007738 chain length determination region; other site 401053007739 substrate-Mg2+ binding site; other site 401053007740 catalytic residues [active] 401053007741 aspartate-rich region 1; other site 401053007742 active site lid residues [active] 401053007743 aspartate-rich region 2; other site 401053007744 Domain of unknown function DUF59; Region: DUF59; cl00941 401053007745 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 401053007746 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 401053007747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 401053007748 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 401053007749 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 401053007750 dimer interface [polypeptide binding]; other site 401053007751 ADP-ribose binding site [chemical binding]; other site 401053007752 active site 401053007753 nudix motif; other site 401053007754 metal binding site [ion binding]; metal-binding site 401053007755 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 401053007756 DNA-binding site [nucleotide binding]; DNA binding site 401053007757 RNA-binding motif; other site 401053007758 hypothetical protein; Provisional; Region: PRK08609 401053007759 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 401053007760 active site 401053007761 primer binding site [nucleotide binding]; other site 401053007762 NTP binding site [chemical binding]; other site 401053007763 metal binding triad [ion binding]; metal-binding site 401053007764 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 401053007765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007766 Bacillus subtilis (Bs) citrate synthase (CS)-II_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). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 401053007767 dimer interface [polypeptide binding]; other site 401053007768 Citrate synthase; Region: Citrate_synt; pfam00285 401053007769 active site 401053007770 citrylCoA binding site [chemical binding]; other site 401053007771 oxalacetate/citrate binding site [chemical binding]; other site 401053007772 coenzyme A binding site [chemical binding]; other site 401053007773 catalytic triad [active] 401053007774 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053007775 classical (c) SDRs; Region: SDR_c; cd05233 401053007776 NAD(P) binding site [chemical binding]; other site 401053007777 active site 401053007778 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 401053007779 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007780 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 401053007781 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; cl00284 401053007782 pteridine reductase; Provisional; Region: PRK09135 401053007783 classical (c) SDRs; Region: SDR_c; cd05233 401053007784 NAD(P) binding site [chemical binding]; other site 401053007785 active site 401053007786 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 401053007787 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053007788 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 401053007789 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053007790 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 401053007791 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 401053007792 N-terminal plug; other site 401053007793 ligand-binding site [chemical binding]; other site 401053007794 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 401053007795 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 401053007796 Protein of unknown function (DUF419); Region: DUF419; cl15265 401053007797 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 401053007798 Helix-turn-helix domains; Region: HTH; cl00088 401053007799 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 401053007800 dimerization interface [polypeptide binding]; other site 401053007801 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053007802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007803 NAD(P) binding site [chemical binding]; other site 401053007804 active site 401053007805 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 401053007806 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 401053007807 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 401053007808 catalytic residue [active] 401053007809 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 401053007810 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 401053007811 Ligand Binding Site [chemical binding]; other site 401053007812 YtxH-like protein; Region: YtxH; cl02079 401053007813 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053007814 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053007815 homodimer interface [polypeptide binding]; other site 401053007816 active site 401053007817 TDP-binding site; other site 401053007818 acceptor substrate-binding pocket; other site 401053007819 GXWXG protein; Region: GXWXG; pfam14231 401053007820 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 401053007821 GXWXG protein; Region: GXWXG; pfam14231 401053007822 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 401053007823 GXWXG protein; Region: GXWXG; pfam14231 401053007824 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 401053007825 Uncharacterized conserved protein [Function unknown]; Region: COG1543 401053007826 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 401053007827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007828 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 401053007829 catalytic core [active] 401053007830 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 401053007831 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 401053007832 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 401053007833 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053007834 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053007835 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 401053007836 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 401053007837 ligand binding site; other site 401053007838 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053007839 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 401053007840 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 401053007841 DNA binding residues [nucleotide binding] 401053007842 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 401053007843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053007844 NAD(P) binding site [chemical binding]; other site 401053007845 active site 401053007846 chaperone protein DnaJ; Provisional; Region: PRK14295 401053007847 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 401053007848 HSP70 interaction site [polypeptide binding]; other site 401053007849 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 401053007850 Zn binding sites [ion binding]; other site 401053007851 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 401053007852 dimer interface [polypeptide binding]; other site 401053007853 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 401053007854 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 401053007855 putative DNA binding site [nucleotide binding]; other site 401053007856 catalytic residue [active] 401053007857 putative H2TH interface [polypeptide binding]; other site 401053007858 putative catalytic residues [active] 401053007859 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 401053007860 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 401053007861 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 401053007862 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 401053007863 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 401053007864 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 401053007865 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 401053007866 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 401053007867 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 401053007868 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 401053007869 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 401053007870 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 401053007871 Walker A motif; other site 401053007872 ATP binding site [chemical binding]; other site 401053007873 Walker B motif; other site 401053007874 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 401053007875 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 401053007876 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 401053007877 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 401053007878 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 401053007879 active site 401053007880 dimer interface [polypeptide binding]; other site 401053007881 OpgC protein; Region: OpgC_C; cl00792 401053007882 Acyltransferase family; Region: Acyl_transf_3; pfam01757 401053007883 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 401053007884 putative nucleotide binding site [chemical binding]; other site 401053007885 uridine monophosphate binding site [chemical binding]; other site 401053007886 homohexameric interface [polypeptide binding]; other site 401053007887 elongation factor Ts; Reviewed; Region: tsf; PRK12332 401053007888 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 401053007889 Elongation factor TS; Region: EF_TS; pfam00889 401053007890 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 401053007891 rRNA interaction site [nucleotide binding]; other site 401053007892 S8 interaction site; other site 401053007893 putative laminin-1 binding site; other site 401053007894 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 401053007895 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 401053007896 23S rRNA interface [nucleotide binding]; other site 401053007897 L3 interface [polypeptide binding]; other site 401053007898 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053007899 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053007900 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 401053007901 FtsX-like permease family; Region: FtsX; cl15850 401053007902 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 401053007903 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 401053007904 S-adenosylmethionine synthetase; Validated; Region: PRK05250 401053007905 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 401053007906 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 401053007907 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 401053007908 oxidoreductase; Provisional; Region: PRK06196 401053007909 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 401053007910 putative NAD(P) binding site [chemical binding]; other site 401053007911 active site 401053007912 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053007913 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053007914 homodimer interface [polypeptide binding]; other site 401053007915 active site 401053007916 TDP-binding site; other site 401053007917 acceptor substrate-binding pocket; other site 401053007918 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 401053007919 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 401053007920 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 401053007921 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 401053007922 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053007923 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 401053007924 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 401053007925 DNA binding site [nucleotide binding] 401053007926 active site 401053007927 Adenosylhomocysteinase; Provisional; Region: PTZ00075 401053007928 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 401053007929 oligomerization interface [polypeptide binding]; other site 401053007930 active site 401053007931 NAD+ binding site [chemical binding]; other site 401053007932 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 401053007933 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 401053007934 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 401053007935 ATP phosphoribosyltransferase; Region: HisG; cl15266 401053007936 HisG, C-terminal domain; Region: HisG_C; cl06867 401053007937 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 401053007938 histidinol dehydrogenase; Region: hisD; TIGR00069 401053007939 NAD binding site [chemical binding]; other site 401053007940 dimerization interface [polypeptide binding]; other site 401053007941 product binding site; other site 401053007942 substrate binding site [chemical binding]; other site 401053007943 zinc binding site [ion binding]; other site 401053007944 catalytic residues [active] 401053007945 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 401053007946 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 401053007947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053007948 homodimer interface [polypeptide binding]; other site 401053007949 catalytic residue [active] 401053007950 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 401053007951 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 401053007952 putative active site pocket [active] 401053007953 4-fold oligomerization interface [polypeptide binding]; other site 401053007954 metal binding residues [ion binding]; metal-binding site 401053007955 3-fold/trimer interface [polypeptide binding]; other site 401053007956 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 401053007957 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 401053007958 putative active site [active] 401053007959 oxyanion strand; other site 401053007960 catalytic triad [active] 401053007961 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 401053007962 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 401053007963 substrate binding site [chemical binding]; other site 401053007964 glutamase interaction surface [polypeptide binding]; other site 401053007965 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 401053007966 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 401053007967 catalytic residues [active] 401053007968 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053007969 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 401053007970 metal ion-dependent adhesion site (MIDAS); other site 401053007971 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053007972 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 401053007973 EamA-like transporter family; Region: EamA; cl01037 401053007974 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 401053007975 ribonuclease P protein component 3; Provisional; Region: PRK00912 401053007976 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 401053007977 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 401053007978 ligand binding site; other site 401053007979 oligomer interface; other site 401053007980 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 401053007981 dimer interface [polypeptide binding]; other site 401053007982 N-terminal domain interface [polypeptide binding]; other site 401053007983 sulfate 1 binding site; other site 401053007984 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 401053007985 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 401053007986 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 401053007987 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 401053007988 lipoyl attachment site [posttranslational modification]; other site 401053007989 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 401053007990 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 401053007991 tetramer interface [polypeptide binding]; other site 401053007992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053007993 catalytic residue [active] 401053007994 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 401053007995 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 401053007996 tetramer interface [polypeptide binding]; other site 401053007997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053007998 catalytic residue [active] 401053007999 Endodeoxyribonuclease RusA; Region: RusA; cl01885 401053008000 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; cl02940 401053008001 DNA polymerase III subunit beta; Validated; Region: PRK05643 401053008002 putative DNA binding surface [nucleotide binding]; other site 401053008003 dimer interface [polypeptide binding]; other site 401053008004 beta-clamp/clamp loader binding surface; other site 401053008005 beta-clamp/translesion DNA polymerase binding surface; other site 401053008006 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; cl15754 401053008007 cofactor binding site; other site 401053008008 DNA binding site [nucleotide binding] 401053008009 substrate interaction site [chemical binding]; other site 401053008010 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 401053008011 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 401053008012 RHS Repeat; Region: RHS_repeat; cl11982 401053008013 RHS Repeat; Region: RHS_repeat; cl11982 401053008014 RHS Repeat; Region: RHS_repeat; cl11982 401053008015 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 401053008016 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 401053008017 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 401053008018 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 401053008019 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 401053008020 DNA binding site [nucleotide binding] 401053008021 Int/Topo IB signature motif; other site 401053008022 active site 401053008023 catalytic residues [active] 401053008024 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053008025 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 401053008026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053008027 Walker A/P-loop; other site 401053008028 ATP binding site [chemical binding]; other site 401053008029 Q-loop/lid; other site 401053008030 ABC transporter signature motif; other site 401053008031 Walker B; other site 401053008032 D-loop; other site 401053008033 H-loop/switch region; other site 401053008034 ABC transporter; Region: ABC_tran_2; pfam12848 401053008035 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 401053008036 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 401053008037 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 401053008038 Predicted transcriptional regulators [Transcription]; Region: COG1725 401053008039 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 401053008040 DNA-binding site [nucleotide binding]; DNA binding site 401053008041 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053008042 GMP synthase; Reviewed; Region: guaA; PRK00074 401053008043 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 401053008044 AMP/PPi binding site [chemical binding]; other site 401053008045 candidate oxyanion hole; other site 401053008046 catalytic triad [active] 401053008047 potential glutamine specificity residues [chemical binding]; other site 401053008048 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 401053008049 ATP Binding subdomain [chemical binding]; other site 401053008050 Ligand Binding sites [chemical binding]; other site 401053008051 Dimerization subdomain; other site 401053008052 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 401053008053 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 401053008054 HIGH motif; other site 401053008055 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 401053008056 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 401053008057 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 401053008058 active site 401053008059 KMSKS motif; other site 401053008060 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 401053008061 tRNA binding surface [nucleotide binding]; other site 401053008062 endonuclease IV; Provisional; Region: PRK01060 401053008063 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; cd00019 401053008064 AP (apurinic/apyrimidinic) site pocket; other site 401053008065 DNA interaction; other site 401053008066 Metal-binding active site; metal-binding site 401053008067 Domain of unknown function (DUF427); Region: DUF427; cl00998 401053008068 DNA topoisomerase I; Validated; Region: PRK06599 401053008069 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 401053008070 active site 401053008071 interdomain interaction site; other site 401053008072 putative metal-binding site [ion binding]; other site 401053008073 nucleotide binding site [chemical binding]; other site 401053008074 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 401053008075 domain I; other site 401053008076 DNA binding groove [nucleotide binding] 401053008077 phosphate binding site [ion binding]; other site 401053008078 domain II; other site 401053008079 domain III; other site 401053008080 nucleotide binding site [chemical binding]; other site 401053008081 catalytic site [active] 401053008082 domain IV; other site 401053008083 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 401053008084 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 401053008085 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 401053008086 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 401053008087 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 401053008088 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 401053008089 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 401053008090 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 401053008091 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 401053008092 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 401053008093 dimer interface [polypeptide binding]; other site 401053008094 active site 401053008095 CoA binding pocket [chemical binding]; other site 401053008096 TIGR03790 family protein; Region: TIGR03790 401053008097 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 401053008098 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 401053008099 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 401053008100 FeS/SAM binding site; other site 401053008101 Domain of unknown function (DUF329); Region: DUF329; cl01144 401053008102 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 401053008103 tetramer interfaces [polypeptide binding]; other site 401053008104 binuclear metal-binding site [ion binding]; other site 401053008105 Cupin domain; Region: Cupin_2; cl09118 401053008106 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 401053008107 competence damage-inducible protein A; Provisional; Region: PRK00549 401053008108 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 401053008109 putative MPT binding site; other site 401053008110 Competence-damaged protein; Region: CinA; cl00666 401053008111 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 401053008112 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 401053008113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008114 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 401053008115 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 401053008116 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 401053008117 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 401053008118 P loop; other site 401053008119 GTP binding site [chemical binding]; other site 401053008120 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 401053008121 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 401053008122 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 401053008123 catalytic residue [active] 401053008124 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 401053008125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008126 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 401053008127 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 401053008128 catalytic motif [active] 401053008129 Zn binding site [ion binding]; other site 401053008130 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 401053008131 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 401053008132 Lumazine binding domain; Region: Lum_binding; pfam00677 401053008133 Lumazine binding domain; Region: Lum_binding; pfam00677 401053008134 thymidine kinase; Provisional; Region: PRK04296 401053008135 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053008136 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 401053008137 active site 401053008138 metal binding site [ion binding]; metal-binding site 401053008139 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 401053008140 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 401053008141 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 401053008142 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 401053008143 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 401053008144 ATP-grasp domain; Region: ATP-grasp_4; cl03087 401053008145 CoA-ligase; Region: Ligase_CoA; cl02894 401053008146 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 401053008147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008148 CoA-ligase; Region: Ligase_CoA; cl02894 401053008149 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 401053008150 active site 401053008151 multimer interface [polypeptide binding]; other site 401053008152 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 401053008153 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 401053008154 Putative zinc-finger; Region: zf-HC2; cl15806 401053008155 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 401053008156 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053008157 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 401053008158 DNA binding residues [nucleotide binding] 401053008159 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 401053008160 E-class dimer interface [polypeptide binding]; other site 401053008161 P-class dimer interface [polypeptide binding]; other site 401053008162 active site 401053008163 Cu2+ binding site [ion binding]; other site 401053008164 Zn2+ binding site [ion binding]; other site 401053008165 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 401053008166 active site 401053008167 catalytic triad [active] 401053008168 oxyanion hole [active] 401053008169 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 401053008170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053008171 Coenzyme A binding pocket [chemical binding]; other site 401053008172 putative methyltransferase; Provisional; Region: PRK14968 401053008173 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 401053008174 active site 401053008175 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 401053008176 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 401053008177 homodimer interface [polypeptide binding]; other site 401053008178 substrate-cofactor binding pocket; other site 401053008179 catalytic residue [active] 401053008180 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 401053008181 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053008182 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 401053008183 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053008184 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053008185 Sodium:solute symporter family; Region: SSF; cl00456 401053008186 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 401053008187 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 401053008188 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 401053008189 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 401053008190 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053008191 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 401053008192 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053008193 NAD(P) binding site [chemical binding]; other site 401053008194 active site 401053008195 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 401053008196 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 401053008197 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 401053008198 active site 401053008199 Zn binding site [ion binding]; other site 401053008200 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 401053008201 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 401053008202 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 401053008203 catalytic residue [active] 401053008204 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 401053008205 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 401053008206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053008208 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 401053008209 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 401053008210 Protein of unknown function (DUF503); Region: DUF503; cl00669 401053008211 Ribosome-binding factor A; Region: RBFA; cl00542 401053008212 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053008213 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 401053008214 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 401053008215 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 401053008216 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 401053008217 active site 401053008218 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 401053008219 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 401053008220 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 401053008221 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 401053008222 active site 401053008223 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 401053008224 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 401053008225 ribosome maturation protein RimP; Reviewed; Region: PRK00092 401053008226 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 401053008227 Sm1 motif; other site 401053008228 predicted subunit interaction site [polypeptide binding]; other site 401053008229 RNA binding pocket [nucleotide binding]; other site 401053008230 Sm2 motif; other site 401053008231 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 401053008232 NusA N-terminal domain; Region: NusA_N; pfam08529 401053008233 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 401053008234 RNA binding site [nucleotide binding]; other site 401053008235 homodimer interface [polypeptide binding]; other site 401053008236 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 401053008237 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 401053008238 G-X-X-G motif; other site 401053008239 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 401053008240 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 401053008241 translation initiation factor IF-2; Region: IF-2; TIGR00487 401053008242 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 401053008243 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 401053008244 G1 box; other site 401053008245 putative GEF interaction site [polypeptide binding]; other site 401053008246 GTP/Mg2+ binding site [chemical binding]; other site 401053008247 Switch I region; other site 401053008248 G2 box; other site 401053008249 G3 box; other site 401053008250 Switch II region; other site 401053008251 G4 box; other site 401053008252 G5 box; other site 401053008253 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 401053008254 Translation-initiation factor 2; Region: IF-2; pfam11987 401053008255 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 401053008256 Phage T4 tail fibre; Region: Phage_T4_gp36; pfam03903 401053008257 HEAT repeats; Region: HEAT_2; pfam13646 401053008258 FAD dependent oxidoreductase; Region: DAO; pfam01266 401053008259 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 401053008260 dimerization interface [polypeptide binding]; other site 401053008261 metal binding site [ion binding]; metal-binding site 401053008262 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 401053008263 VanZ like family; Region: VanZ; cl01971 401053008264 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 401053008265 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 401053008266 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 401053008267 alphaNTD homodimer interface [polypeptide binding]; other site 401053008268 alphaNTD - beta interaction site [polypeptide binding]; other site 401053008269 alphaNTD - beta' interaction site [polypeptide binding]; other site 401053008270 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 401053008271 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 401053008272 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 401053008273 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 401053008274 RNA binding surface [nucleotide binding]; other site 401053008275 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 401053008276 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 401053008277 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 401053008278 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 401053008279 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 401053008280 rRNA binding site [nucleotide binding]; other site 401053008281 predicted 30S ribosome binding site; other site 401053008282 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 401053008283 active site 401053008284 adenylate kinase; Reviewed; Region: adk; PRK00279 401053008285 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 401053008286 AMP-binding site [chemical binding]; other site 401053008287 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 401053008288 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 401053008289 SecY translocase; Region: SecY; pfam00344 401053008290 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 401053008291 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 401053008292 23S rRNA binding site [nucleotide binding]; other site 401053008293 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 401053008294 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 401053008295 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 401053008296 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 401053008297 5S rRNA interface [nucleotide binding]; other site 401053008298 L27 interface [polypeptide binding]; other site 401053008299 23S rRNA interface [nucleotide binding]; other site 401053008300 L5 interface [polypeptide binding]; other site 401053008301 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 401053008302 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 401053008303 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 401053008304 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 401053008305 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 401053008306 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 401053008307 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 401053008308 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 401053008309 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 401053008310 KOW motif; Region: KOW; cl00354 401053008311 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 401053008312 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 401053008313 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 401053008314 putative translocon interaction site; other site 401053008315 23S rRNA interface [nucleotide binding]; other site 401053008316 signal recognition particle (SRP54) interaction site; other site 401053008317 L23 interface [polypeptide binding]; other site 401053008318 trigger factor interaction site; other site 401053008319 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 401053008320 23S rRNA interface [nucleotide binding]; other site 401053008321 5S rRNA interface [nucleotide binding]; other site 401053008322 putative antibiotic binding site [chemical binding]; other site 401053008323 L25 interface [polypeptide binding]; other site 401053008324 L27 interface [polypeptide binding]; other site 401053008325 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 401053008326 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 401053008327 G-X-X-G motif; other site 401053008328 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 401053008329 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 401053008330 protein-rRNA interface [nucleotide binding]; other site 401053008331 putative translocon binding site; other site 401053008332 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 401053008333 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 401053008334 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 401053008335 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 401053008336 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 401053008337 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 401053008338 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 401053008339 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 401053008340 elongation factor Tu; Reviewed; Region: PRK00049 401053008341 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 401053008342 G1 box; other site 401053008343 GEF interaction site [polypeptide binding]; other site 401053008344 GTP/Mg2+ binding site [chemical binding]; other site 401053008345 Switch I region; other site 401053008346 G2 box; other site 401053008347 G3 box; other site 401053008348 Switch II region; other site 401053008349 G4 box; other site 401053008350 G5 box; other site 401053008351 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 401053008352 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 401053008353 Antibiotic Binding Site [chemical binding]; other site 401053008354 elongation factor G; Reviewed; Region: PRK00007 401053008355 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 401053008356 G1 box; other site 401053008357 putative GEF interaction site [polypeptide binding]; other site 401053008358 GTP/Mg2+ binding site [chemical binding]; other site 401053008359 Switch I region; other site 401053008360 G2 box; other site 401053008361 G3 box; other site 401053008362 Switch II region; other site 401053008363 G4 box; other site 401053008364 G5 box; other site 401053008365 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 401053008366 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 401053008367 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 401053008368 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 401053008369 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 401053008370 S17 interaction site [polypeptide binding]; other site 401053008371 S8 interaction site; other site 401053008372 16S rRNA interaction site [nucleotide binding]; other site 401053008373 streptomycin interaction site [chemical binding]; other site 401053008374 23S rRNA interaction site [nucleotide binding]; other site 401053008375 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 401053008376 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 401053008377 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053008378 Helix-turn-helix domains; Region: HTH; cl00088 401053008379 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 401053008380 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 401053008381 dimer interface [polypeptide binding]; other site 401053008382 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053008383 metal binding site [ion binding]; metal-binding site 401053008384 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 401053008385 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 401053008386 DinB superfamily; Region: DinB_2; pfam12867 401053008387 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 401053008388 Rhomboid family; Region: Rhomboid; cl11446 401053008389 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053008390 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053008391 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 401053008392 putative active site [active] 401053008393 putative catalytic site [active] 401053008394 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 401053008395 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 401053008396 active site 401053008397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008400 NAD(P) binding site [chemical binding]; other site 401053008401 active site 401053008402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008403 active site 401053008404 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 401053008405 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053008406 active site 401053008407 metal binding site [ion binding]; metal-binding site 401053008408 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 401053008409 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 401053008410 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 401053008411 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 401053008412 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 401053008413 alpha subunit interaction interface [polypeptide binding]; other site 401053008414 Walker A motif; other site 401053008415 ATP binding site [chemical binding]; other site 401053008416 Walker B motif; other site 401053008417 inhibitor binding site; inhibition site 401053008418 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 401053008419 ATP synthase; Region: ATP-synt; cl00365 401053008420 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 401053008421 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 401053008422 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 401053008423 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 401053008424 beta subunit interaction interface [polypeptide binding]; other site 401053008425 Walker A motif; other site 401053008426 ATP binding site [chemical binding]; other site 401053008427 Walker B motif; other site 401053008428 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 401053008429 Plant ATP synthase F0; Region: YMF19; cl07975 401053008430 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 401053008431 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 401053008432 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 401053008433 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 401053008434 HflX GTPase family; Region: HflX; cd01878 401053008435 G1 box; other site 401053008436 GTP/Mg2+ binding site [chemical binding]; other site 401053008437 Switch I region; other site 401053008438 G2 box; other site 401053008439 G3 box; other site 401053008440 Switch II region; other site 401053008441 G4 box; other site 401053008442 G5 box; other site 401053008443 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 401053008444 Sm1 motif; other site 401053008445 D3 - B interaction site; other site 401053008446 D1 - D2 interaction site; other site 401053008447 Hfq - Hfq interaction site; other site 401053008448 RNA binding pocket [nucleotide binding]; other site 401053008449 Sm2 motif; other site 401053008450 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 401053008451 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 401053008452 inhibitor-cofactor binding pocket; inhibition site 401053008453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053008454 catalytic residue [active] 401053008455 CCC1; Region: CCC1; cd02435 401053008456 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 401053008457 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 401053008458 putative substrate translocation pore; other site 401053008459 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 401053008460 Helix-turn-helix domains; Region: HTH; cl00088 401053008461 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 401053008462 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 401053008463 domain interfaces; other site 401053008464 pyruvate kinase; Provisional; Region: PRK05826 401053008465 active site 401053008466 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 401053008467 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 401053008468 ScpA/B protein; Region: ScpA_ScpB; cl00598 401053008469 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 401053008470 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 401053008471 active site 401053008472 HIGH motif; other site 401053008473 dimer interface [polypeptide binding]; other site 401053008474 KMSKS motif; other site 401053008475 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 401053008476 active site 401053008477 putative substrate binding region [chemical binding]; other site 401053008478 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 401053008479 Protein of unknown function (DUF541); Region: SIMPL; cl01077 401053008480 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053008481 Phosphopantetheine attachment site; Region: PP-binding; cl09936 401053008482 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 401053008483 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 401053008484 FeS/SAM binding site; other site 401053008485 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 401053008486 GAF domain; Region: GAF_2; pfam13185 401053008487 GAF domain; Region: GAF; cl15785 401053008488 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053008489 metal binding site [ion binding]; metal-binding site 401053008490 active site 401053008491 I-site; other site 401053008492 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 401053008493 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 401053008494 active site 401053008495 catalytic tetrad [active] 401053008496 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 401053008497 CTP synthetase; Validated; Region: pyrG; PRK05380 401053008498 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 401053008499 Catalytic site [active] 401053008500 active site 401053008501 UTP binding site [chemical binding]; other site 401053008502 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 401053008503 active site 401053008504 putative oxyanion hole; other site 401053008505 catalytic triad [active] 401053008506 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 401053008507 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 401053008508 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 401053008509 NeuB family; Region: NeuB; cl00496 401053008510 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 401053008511 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 401053008512 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 401053008513 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 401053008514 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 401053008515 catalytic triad [active] 401053008516 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 401053008517 NodB motif; other site 401053008518 active site 401053008519 catalytic site [active] 401053008520 metal binding site [ion binding]; metal-binding site 401053008521 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 401053008522 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053008523 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 401053008524 DNA binding residues [nucleotide binding] 401053008525 Putative zinc-finger; Region: zf-HC2; cl15806 401053008526 HEAT repeats; Region: HEAT_2; pfam13646 401053008527 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 401053008528 protein binding site [polypeptide binding]; other site 401053008529 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 401053008530 protein binding site [polypeptide binding]; other site 401053008531 Uncharacterized conserved protein [Function unknown]; Region: COG2308 401053008532 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 401053008533 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 401053008534 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 401053008535 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 401053008536 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 401053008537 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 401053008538 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 401053008539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008540 NAD(P) binding site [chemical binding]; other site 401053008541 active site 401053008542 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 401053008543 FAD binding domain; Region: FAD_binding_4; pfam01565 401053008544 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 401053008545 heme binding pocket [chemical binding]; other site 401053008546 heme ligand [chemical binding]; other site 401053008547 PAS fold; Region: PAS_2; pfam08446 401053008548 GAF domain; Region: GAF; cl15785 401053008549 Phytochrome region; Region: PHY; pfam00360 401053008550 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 401053008551 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 401053008552 putative active site [active] 401053008553 heme pocket [chemical binding]; other site 401053008554 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 401053008555 dimer interface [polypeptide binding]; other site 401053008556 phosphorylation site [posttranslational modification] 401053008557 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 401053008558 ATP binding site [chemical binding]; other site 401053008559 Mg2+ binding site [ion binding]; other site 401053008560 G-X-G motif; other site 401053008561 ribosomal protein L20; Region: rpl20; CHL00068 401053008562 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 401053008563 23S rRNA binding site [nucleotide binding]; other site 401053008564 L21 binding site [polypeptide binding]; other site 401053008565 L13 binding site [polypeptide binding]; other site 401053008566 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 401053008567 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 401053008568 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 401053008569 ATP binding site [chemical binding]; other site 401053008570 Mg2+ binding site [ion binding]; other site 401053008571 G-X-G motif; other site 401053008572 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 401053008573 anchoring element; other site 401053008574 dimer interface [polypeptide binding]; other site 401053008575 ATP binding site [chemical binding]; other site 401053008576 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 401053008577 active site 401053008578 putative metal-binding site [ion binding]; other site 401053008579 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 401053008580 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 401053008581 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 401053008582 oligomeric interface; other site 401053008583 putative active site [active] 401053008584 homodimer interface [polypeptide binding]; other site 401053008585 Glyco_18 domain; Region: Glyco_18; smart00636 401053008586 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 401053008587 active site 401053008588 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 401053008589 Amidase; Region: Amidase; cl11426 401053008590 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 401053008591 classical (c) SDRs; Region: SDR_c; cd05233 401053008592 NAD(P) binding site [chemical binding]; other site 401053008593 active site 401053008594 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 401053008595 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 401053008596 Walker A/P-loop; other site 401053008597 ATP binding site [chemical binding]; other site 401053008598 Q-loop/lid; other site 401053008599 ABC transporter signature motif; other site 401053008600 Walker B; other site 401053008601 D-loop; other site 401053008602 H-loop/switch region; other site 401053008603 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 401053008604 PQ loop repeat; Region: PQ-loop; cl12056 401053008605 Protein of unknown function (DUF971); Region: DUF971; cl01414 401053008606 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 401053008607 GXWXG protein; Region: GXWXG; pfam14231 401053008608 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 401053008609 H+ Antiporter protein; Region: 2A0121; TIGR00900 401053008610 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 401053008611 putative substrate translocation pore; other site 401053008612 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053008613 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 401053008614 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 401053008615 FeS/SAM binding site; other site 401053008616 PAS domain S-box; Region: sensory_box; TIGR00229 401053008617 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 401053008618 putative active site [active] 401053008619 heme pocket [chemical binding]; other site 401053008620 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 401053008621 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 401053008622 dimer interface [polypeptide binding]; other site 401053008623 phosphorylation site [posttranslational modification] 401053008624 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 401053008625 ATP binding site [chemical binding]; other site 401053008626 Mg2+ binding site [ion binding]; other site 401053008627 G-X-G motif; other site 401053008628 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 401053008629 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 401053008630 G1 box; other site 401053008631 putative GEF interaction site [polypeptide binding]; other site 401053008632 GTP/Mg2+ binding site [chemical binding]; other site 401053008633 Switch I region; other site 401053008634 G2 box; other site 401053008635 G3 box; other site 401053008636 Switch II region; other site 401053008637 G4 box; other site 401053008638 G5 box; other site 401053008639 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 401053008640 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 401053008641 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 401053008642 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 401053008643 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 401053008644 Ca binding site [ion binding]; other site 401053008645 active site 401053008646 catalytic site [active] 401053008647 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 401053008648 AsmA-like C-terminal region; Region: AsmA_2; cl15864 401053008649 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 401053008650 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 401053008651 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 401053008652 ABC transporter; Region: ABC_tran_2; pfam12848 401053008653 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 401053008654 CAAX protease self-immunity; Region: Abi; cl00558 401053008655 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 401053008656 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 401053008657 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053008658 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 401053008659 active site 401053008660 metal binding site [ion binding]; metal-binding site 401053008661 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053008662 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 401053008663 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 401053008664 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 401053008665 PAS fold; Region: PAS_4; pfam08448 401053008666 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 401053008667 putative active site [active] 401053008668 heme pocket [chemical binding]; other site 401053008669 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 401053008670 PAS fold; Region: PAS_3; pfam08447 401053008671 putative active site [active] 401053008672 heme pocket [chemical binding]; other site 401053008673 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 401053008674 PAS domain; Region: PAS_9; pfam13426 401053008675 PAS domain S-box; Region: sensory_box; TIGR00229 401053008676 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 401053008677 putative active site [active] 401053008678 heme pocket [chemical binding]; other site 401053008679 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053008680 metal binding site [ion binding]; metal-binding site 401053008681 active site 401053008682 I-site; other site 401053008683 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 401053008684 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 401053008685 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 401053008686 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 401053008687 DXD motif; other site 401053008688 PilZ domain; Region: PilZ; cl01260 401053008689 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 401053008690 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 401053008691 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 401053008692 active site 401053008693 catalytic residues [active] 401053008694 Proline dehydrogenase; Region: Pro_dh; cl03282 401053008695 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 401053008696 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 401053008697 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; cd01066 401053008698 active site 401053008699 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 401053008700 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 401053008701 Amidohydrolase; Region: Amidohydro_4; pfam13147 401053008702 active site 401053008703 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 401053008704 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 401053008705 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 401053008706 Amidohydrolase; Region: Amidohydro_4; pfam13147 401053008707 active site 401053008708 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 401053008709 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053008710 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; cl00284 401053008711 Transcriptional regulators [Transcription]; Region: FadR; COG2186 401053008712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 401053008713 DNA-binding site [nucleotide binding]; DNA binding site 401053008714 FCD domain; Region: FCD; cl11656 401053008715 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 401053008716 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 401053008717 Glutamate binding site [chemical binding]; other site 401053008718 homodimer interface [polypeptide binding]; other site 401053008719 NAD binding site [chemical binding]; other site 401053008720 catalytic residues [active] 401053008721 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 401053008722 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 401053008723 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 401053008724 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053008725 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053008726 homodimer interface [polypeptide binding]; other site 401053008727 active site 401053008728 TDP-binding site; other site 401053008729 acceptor substrate-binding pocket; other site 401053008730 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053008731 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 401053008732 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 401053008733 catalytic residue [active] 401053008734 Transglycosylase; Region: Transgly; cl07896 401053008735 Amino acid permease; Region: AA_permease_2; pfam13520 401053008736 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 401053008737 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 401053008738 putative substrate translocation pore; other site 401053008739 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 401053008740 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 401053008741 dimer interface [polypeptide binding]; other site 401053008742 substrate binding site [chemical binding]; other site 401053008743 metal binding sites [ion binding]; metal-binding site 401053008744 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 401053008745 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 401053008746 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 401053008747 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_5; cd04962 401053008748 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053008749 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053008750 FtsX-like permease family; Region: FtsX; cl15850 401053008751 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053008752 FtsX-like permease family; Region: FtsX; cl15850 401053008753 Helix-turn-helix domains; Region: HTH; cl00088 401053008754 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 401053008755 DNA binding residues [nucleotide binding] 401053008756 TOBE domain; Region: TOBE_2; cl01440 401053008757 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053008758 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 401053008759 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 401053008760 Sensors of blue-light using FAD; Region: BLUF; cl04855 401053008761 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 401053008762 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 401053008763 glutaminase active site [active] 401053008764 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 401053008765 dimer interface [polypeptide binding]; other site 401053008766 active site 401053008767 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 401053008768 dimer interface [polypeptide binding]; other site 401053008769 active site 401053008770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008771 DNA-sulfur modification-associated; Region: DndB; cl14002 401053008772 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 401053008773 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 401053008774 active site 401053008775 catalytic residues [active] 401053008776 metal binding site [ion binding]; metal-binding site 401053008777 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 401053008778 RNB domain; Region: RNB; pfam00773 401053008779 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 401053008780 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 401053008781 RNA binding site [nucleotide binding]; other site 401053008782 probable methyltransferase; Region: TIGR03438 401053008783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008784 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 401053008785 TIGR03440 family protein; Region: unchr_TIGR03440 401053008786 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 401053008787 active site 401053008788 NTP binding site [chemical binding]; other site 401053008789 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 401053008790 nucleic acid binding site [nucleotide binding]; other site 401053008791 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053008792 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053008793 FtsX-like permease family; Region: FtsX; cl15850 401053008794 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053008795 FtsX-like permease family; Region: FtsX; cl15850 401053008796 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 401053008797 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 401053008798 Walker A/P-loop; other site 401053008799 ATP binding site [chemical binding]; other site 401053008800 Q-loop/lid; other site 401053008801 ABC transporter signature motif; other site 401053008802 Walker B; other site 401053008803 D-loop; other site 401053008804 H-loop/switch region; other site 401053008805 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 401053008806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008807 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053008808 Helix-turn-helix domains; Region: HTH; cl00088 401053008809 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 401053008810 classical (c) SDRs; Region: SDR_c; cd05233 401053008811 NAD(P) binding site [chemical binding]; other site 401053008812 active site 401053008813 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 401053008814 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 401053008815 active site 401053008816 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; cd00085 401053008817 active site 401053008818 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 401053008819 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 401053008820 RNA binding site [nucleotide binding]; other site 401053008821 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 401053008822 RNA binding site [nucleotide binding]; other site 401053008823 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 401053008824 RNA binding site [nucleotide binding]; other site 401053008825 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 401053008826 RNA binding site [nucleotide binding]; other site 401053008827 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 401053008828 RNA binding site [nucleotide binding]; other site 401053008829 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 401053008830 RNA binding site [nucleotide binding]; other site 401053008831 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 401053008832 EamA-like transporter family; Region: EamA; cl01037 401053008833 EamA-like transporter family; Region: EamA; cl01037 401053008834 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 401053008835 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 401053008836 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 401053008837 Walker A motif; other site 401053008838 ATP binding site [chemical binding]; other site 401053008839 Walker B motif; other site 401053008840 arginine finger; other site 401053008841 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 401053008842 OpgC protein; Region: OpgC_C; cl00792 401053008843 Acyltransferase family; Region: Acyl_transf_3; pfam01757 401053008844 Protein of unknown function (DUF4106); Region: DUF4106; pfam13388 401053008845 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 401053008846 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 401053008847 Helix-turn-helix domains; Region: HTH; cl00088 401053008848 Integrase core domain; Region: rve; cl01316 401053008849 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 401053008850 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 401053008851 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 401053008852 thiamine phosphate binding site [chemical binding]; other site 401053008853 active site 401053008854 pyrophosphate binding site [ion binding]; other site 401053008855 OpgC protein; Region: OpgC_C; cl00792 401053008856 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK14810 401053008857 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 401053008858 DNA binding site [nucleotide binding] 401053008859 catalytic residue [active] 401053008860 H2TH interface [polypeptide binding]; other site 401053008861 putative catalytic residues [active] 401053008862 turnover-facilitating residue; other site 401053008863 intercalation triad [nucleotide binding]; other site 401053008864 8OG recognition residue [nucleotide binding]; other site 401053008865 putative reading head residues; other site 401053008866 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 401053008867 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 401053008868 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 401053008869 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 401053008870 GDP-binding site [chemical binding]; other site 401053008871 ACT binding site; other site 401053008872 IMP binding site; other site 401053008873 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 401053008874 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 401053008875 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 401053008876 nucleotide binding site/active site [active] 401053008877 HIT family signature motif; other site 401053008878 catalytic residue [active] 401053008879 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 401053008880 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 401053008881 active site 401053008882 HIGH motif; other site 401053008883 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 401053008884 KMSKS motif; other site 401053008885 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 401053008886 UGMP family protein; Validated; Region: PRK09604 401053008887 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 401053008888 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 401053008889 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 401053008890 active site 401053008891 NTP binding site [chemical binding]; other site 401053008892 metal binding triad [ion binding]; metal-binding site 401053008893 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 401053008894 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 401053008895 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 401053008896 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 401053008897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008899 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 401053008900 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 401053008901 FeS/SAM binding site; other site 401053008902 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 401053008903 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 401053008904 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 401053008905 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 401053008906 23S rRNA interface [nucleotide binding]; other site 401053008907 L7/L12 interface [polypeptide binding]; other site 401053008908 putative thiostrepton binding site; other site 401053008909 L25 interface [polypeptide binding]; other site 401053008910 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 401053008911 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 401053008912 putative homodimer interface [polypeptide binding]; other site 401053008913 KOW motif; Region: KOW; cl00354 401053008914 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 401053008915 elongation factor Tu; Reviewed; Region: PRK00049 401053008916 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 401053008917 G1 box; other site 401053008918 GEF interaction site [polypeptide binding]; other site 401053008919 GTP/Mg2+ binding site [chemical binding]; other site 401053008920 Switch I region; other site 401053008921 G2 box; other site 401053008922 G3 box; other site 401053008923 Switch II region; other site 401053008924 G4 box; other site 401053008925 G5 box; other site 401053008926 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 401053008927 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 401053008928 Antibiotic Binding Site [chemical binding]; other site 401053008929 short chain dehydrogenase; Provisional; Region: PRK12937 401053008930 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 401053008931 NADP binding site [chemical binding]; other site 401053008932 substrate binding site [chemical binding]; other site 401053008933 active site 401053008934 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 401053008935 FAD binding domain; Region: FAD_binding_4; pfam01565 401053008936 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 401053008937 putative acetyltransferase; Provisional; Region: PRK03624 401053008938 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053008939 Coenzyme A binding pocket [chemical binding]; other site 401053008940 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053008941 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 401053008942 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 401053008943 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 401053008944 Peptidase family M23; Region: Peptidase_M23; pfam01551 401053008945 thiamine monophosphate kinase; Provisional; Region: PRK05731 401053008946 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 401053008947 ATP binding site [chemical binding]; other site 401053008948 dimerization interface [polypeptide binding]; other site 401053008949 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; cl15754 401053008950 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 401053008951 active site 401053008952 putative substrate binding region [chemical binding]; other site 401053008953 FOG: CBS domain [General function prediction only]; Region: COG0517 401053008954 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 401053008955 Predicted methyltransferases [General function prediction only]; Region: COG0313 401053008956 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 401053008957 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 401053008958 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 401053008959 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 401053008960 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 401053008961 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 401053008962 dimer interface [polypeptide binding]; other site 401053008963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053008964 catalytic residue [active] 401053008965 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 401053008966 MPN+ (JAMM) motif; other site 401053008967 Zinc-binding site [ion binding]; other site 401053008968 hypothetical protein; Validated; Region: PRK07411 401053008969 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 401053008970 ATP binding site [chemical binding]; other site 401053008971 substrate interface [chemical binding]; other site 401053008972 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 401053008973 active site residue [active] 401053008974 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 401053008975 dimerization interface [polypeptide binding]; other site 401053008976 putative DNA binding site [nucleotide binding]; other site 401053008977 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053008978 classical (c) SDRs; Region: SDR_c; cd05233 401053008979 NAD(P) binding site [chemical binding]; other site 401053008980 active site 401053008981 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 401053008982 Sulfatase; Region: Sulfatase; cl10460 401053008983 homoserine dehydrogenase; Provisional; Region: PRK06349 401053008984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053008985 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 401053008986 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 401053008987 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 401053008988 nucleoside/Zn binding site; other site 401053008989 dimer interface [polypeptide binding]; other site 401053008990 catalytic motif [active] 401053008991 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 401053008992 allantoinase; Region: allantoinase; TIGR03178 401053008993 active site 401053008994 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 401053008995 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 401053008996 active site 401053008997 homotetramer interface [polypeptide binding]; other site 401053008998 urate oxidase; Region: urate_oxi; TIGR03383 401053008999 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 401053009000 active site 401053009001 allantoate amidohydrolase; Reviewed; Region: PRK09290 401053009002 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 401053009003 active site 401053009004 metal binding site [ion binding]; metal-binding site 401053009005 dimer interface [polypeptide binding]; other site 401053009006 hypothetical protein; Provisional; Region: PRK11171 401053009007 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 401053009008 allantoate amidohydrolase; Reviewed; Region: PRK09290 401053009009 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 401053009010 active site 401053009011 metal binding site [ion binding]; metal-binding site 401053009012 dimer interface [polypeptide binding]; other site 401053009013 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 401053009014 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 401053009015 NAD(P) binding site [chemical binding]; other site 401053009016 catalytic residues [active] 401053009017 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009018 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 401053009019 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 401053009020 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 401053009021 catalytic site [active] 401053009022 active site 401053009023 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 401053009024 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 401053009025 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 401053009026 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 401053009027 active site 401053009028 catalytic site [active] 401053009029 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 401053009030 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 401053009031 active site 401053009032 homodimer interface [polypeptide binding]; other site 401053009033 catalytic site [active] 401053009034 acceptor binding site [chemical binding]; other site 401053009035 trehalose synthase; Region: treS_nterm; TIGR02456 401053009036 trehalose synthase; Region: treS_nterm; TIGR02456 401053009037 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 401053009038 active site 401053009039 catalytic site [active] 401053009040 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 401053009041 Phosphopantetheine attachment site; Region: PP-binding; cl09936 401053009042 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 401053009043 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053009044 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053009045 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 401053009046 Family description; Region: UvrD_C_2; cl15862 401053009047 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 401053009048 amino acid transporter; Region: 2A0306; TIGR00909 401053009049 Spore germination protein; Region: Spore_permease; cl15802 401053009050 Spore germination protein; Region: Spore_permease; cl15802 401053009051 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 401053009052 Acyl transferase domain; Region: Acyl_transf_1; cl08282 401053009053 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 401053009054 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 401053009055 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 401053009056 Walker A/P-loop; other site 401053009057 ATP binding site [chemical binding]; other site 401053009058 Q-loop/lid; other site 401053009059 ABC transporter signature motif; other site 401053009060 Walker B; other site 401053009061 D-loop; other site 401053009062 H-loop/switch region; other site 401053009063 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 401053009064 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 401053009065 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053009066 active site 401053009067 metal binding site [ion binding]; metal-binding site 401053009068 hypothetical protein; Provisional; Region: PRK10279 401053009069 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 401053009070 nucleophile elbow; other site 401053009071 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 401053009072 Restriction endonuclease; Region: Mrr_cat; cl00516 401053009073 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 401053009074 generic binding surface I; other site 401053009075 generic binding surface II; other site 401053009076 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 401053009077 putative catalytic site [active] 401053009078 putative metal binding site [ion binding]; other site 401053009079 putative phosphate binding site [ion binding]; other site 401053009080 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 401053009081 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 401053009082 beta-D-glucuronidase; Provisional; Region: PRK10150 401053009083 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 401053009084 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 401053009085 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009086 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053009087 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 401053009088 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 401053009089 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 401053009090 SLBB domain; Region: SLBB; pfam10531 401053009091 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 401053009092 Chain length determinant protein; Region: Wzz; cl15801 401053009093 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 401053009094 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 401053009095 dimer interface [polypeptide binding]; other site 401053009096 substrate binding site [chemical binding]; other site 401053009097 metal binding site [ion binding]; metal-binding site 401053009098 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 401053009099 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 401053009100 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 401053009101 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 401053009102 putative active site [active] 401053009103 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 401053009104 active site 401053009105 motif I; other site 401053009106 motif II; other site 401053009107 Bacterial sugar transferase; Region: Bac_transf; cl00939 401053009108 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053009109 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 401053009110 putative ADP-binding pocket [chemical binding]; other site 401053009111 Protein of unknown function (DUF721); Region: DUF721; cl02324 401053009112 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 401053009113 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 401053009114 Amidase; Region: Amidase; cl11426 401053009115 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 401053009116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009117 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053009118 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 401053009119 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053009120 GTP-binding protein Der; Reviewed; Region: PRK00093 401053009121 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 401053009122 G1 box; other site 401053009123 GTP/Mg2+ binding site [chemical binding]; other site 401053009124 Switch I region; other site 401053009125 G2 box; other site 401053009126 Switch II region; other site 401053009127 G3 box; other site 401053009128 G4 box; other site 401053009129 G5 box; other site 401053009130 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 401053009131 G1 box; other site 401053009132 GTP/Mg2+ binding site [chemical binding]; other site 401053009133 Switch I region; other site 401053009134 G2 box; other site 401053009135 G3 box; other site 401053009136 Switch II region; other site 401053009137 G4 box; other site 401053009138 G5 box; other site 401053009139 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 401053009140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053009141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053009142 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053009143 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009144 OPT oligopeptide transporter protein; Region: OPT; cl14607 401053009145 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 401053009146 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 401053009147 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 401053009148 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 401053009149 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 401053009150 dimerization interface [polypeptide binding]; other site 401053009151 active site 401053009152 metal binding site [ion binding]; metal-binding site 401053009153 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 401053009154 dsRNA binding site [nucleotide binding]; other site 401053009155 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 401053009156 Catalytic site [active] 401053009157 signal peptidase I; Provisional; Region: PRK10861 401053009158 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 401053009159 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 401053009160 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 401053009161 Catalytic site [active] 401053009162 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 401053009163 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 401053009164 Catalytic site [active] 401053009165 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 401053009166 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 401053009167 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 401053009168 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 401053009169 Zn binding site [ion binding]; other site 401053009170 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 401053009171 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 401053009172 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 401053009173 RNA polymerase sigma factor; Provisional; Region: PRK11924 401053009174 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053009175 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 401053009176 DNA binding residues [nucleotide binding] 401053009177 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 401053009178 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 401053009179 Double zinc ribbon; Region: DZR; pfam12773 401053009180 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 401053009181 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 401053009182 active site 401053009183 phosphorylation site [posttranslational modification] 401053009184 intermolecular recognition site; other site 401053009185 dimerization interface [polypeptide binding]; other site 401053009186 LytTr DNA-binding domain; Region: LytTR; cl04498 401053009187 PEP-CTERM motif; Region: VPEP; cl15443 401053009188 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 401053009189 glycosyl hydrolase 64 family; Region: GH64-like; cd09214 401053009190 substrate binding pocket [chemical binding]; other site 401053009191 catalytic residues [active] 401053009192 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 401053009193 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 401053009194 dimer interface [polypeptide binding]; other site 401053009195 PYR/PP interface [polypeptide binding]; other site 401053009196 TPP binding site [chemical binding]; other site 401053009197 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 401053009198 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 401053009199 TPP-binding site [chemical binding]; other site 401053009200 dimer interface [polypeptide binding]; other site 401053009201 metabolite-proton symporter; Region: 2A0106; TIGR00883 401053009202 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 401053009203 iron-sulfur cluster [ion binding]; other site 401053009204 [2Fe-2S] cluster binding site [ion binding]; other site 401053009205 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 401053009206 hydrophobic ligand binding site; other site 401053009207 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 401053009208 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 401053009209 active site residue [active] 401053009210 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 401053009211 active site residue [active] 401053009212 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 401053009213 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 401053009214 dimer interface [polypeptide binding]; other site 401053009215 decamer (pentamer of dimers) interface [polypeptide binding]; other site 401053009216 catalytic triad [active] 401053009217 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 401053009218 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053009219 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 401053009220 DNA binding residues [nucleotide binding] 401053009221 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053009222 Cupin domain; Region: Cupin_2; cl09118 401053009223 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; cd00322 401053009224 FAD binding pocket [chemical binding]; other site 401053009225 conserved FAD binding motif [chemical binding]; other site 401053009226 phosphate binding motif [ion binding]; other site 401053009227 beta-alpha-beta structure motif; other site 401053009228 NAD binding pocket [chemical binding]; other site 401053009229 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 401053009230 trimer interface [polypeptide binding]; other site 401053009231 dimer interface [polypeptide binding]; other site 401053009232 putative active site [active] 401053009233 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 401053009234 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 401053009235 dimer interface [polypeptide binding]; other site 401053009236 putative functional site; other site 401053009237 putative MPT binding site; other site 401053009238 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 401053009239 Helix-turn-helix domains; Region: HTH; cl00088 401053009240 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053009241 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053009242 FtsX-like permease family; Region: FtsX; cl15850 401053009243 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053009244 Predicted transcriptional regulator [Transcription]; Region: COG2378 401053009245 Helix-turn-helix domains; Region: HTH; cl00088 401053009246 WYL domain; Region: WYL; cl14852 401053009247 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 401053009248 DinB superfamily; Region: DinB_2; pfam12867 401053009249 TPR repeat; Region: TPR_11; pfam13414 401053009250 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 401053009251 binding surface 401053009252 TPR motif; other site 401053009253 TPR repeat; Region: TPR_11; pfam13414 401053009254 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 401053009255 Ligand Binding Site [chemical binding]; other site 401053009256 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 401053009257 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 401053009258 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 401053009259 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 401053009260 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 401053009261 putative active site [active] 401053009262 putative substrate binding site [chemical binding]; other site 401053009263 putative cosubstrate binding site; other site 401053009264 catalytic site [active] 401053009265 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 401053009266 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 401053009267 FeS/SAM binding site; other site 401053009268 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 401053009269 active site 401053009270 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053009271 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 401053009272 metal ion-dependent adhesion site (MIDAS); other site 401053009273 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 401053009274 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 401053009275 ATP binding site [chemical binding]; other site 401053009276 putative Mg++ binding site [ion binding]; other site 401053009277 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 401053009278 nucleotide binding region [chemical binding]; other site 401053009279 ATP-binding site [chemical binding]; other site 401053009280 DEAD/H associated; Region: DEAD_assoc; pfam08494 401053009281 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009282 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 401053009283 Putative zinc-finger; Region: zf-HC2; cl15806 401053009284 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 401053009285 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 401053009286 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053009287 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 401053009288 DNA binding residues [nucleotide binding] 401053009289 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 401053009290 Helix-turn-helix domains; Region: HTH; cl00088 401053009291 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 401053009292 dimerization interface [polypeptide binding]; other site 401053009293 substrate binding pocket [chemical binding]; other site 401053009294 Predicted acetyltransferase [General function prediction only]; Region: COG3153 401053009295 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053009296 Coenzyme A binding pocket [chemical binding]; other site 401053009297 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 401053009298 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 401053009299 Cytochrome c; Region: Cytochrom_C; cl11414 401053009300 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 401053009301 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 401053009302 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 401053009303 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 401053009304 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 401053009305 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 401053009306 Ligand binding site; other site 401053009307 Putative Catalytic site; other site 401053009308 DXD motif; other site 401053009309 GtrA-like protein; Region: GtrA; cl00971 401053009310 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053009311 TPR repeat; Region: TPR_11; pfam13414 401053009312 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 401053009313 TPR motif; other site 401053009314 binding surface 401053009315 TPR repeat; Region: TPR_11; pfam13414 401053009316 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 401053009317 binding surface 401053009318 TPR motif; other site 401053009319 Tetratricopeptide repeat; Region: TPR_12; pfam13424 401053009320 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 401053009321 binding surface 401053009322 TPR motif; other site 401053009323 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 401053009324 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 401053009325 FeS/SAM binding site; other site 401053009326 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 401053009327 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 401053009328 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 401053009329 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 401053009330 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 401053009331 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053009332 Walker A/P-loop; other site 401053009333 ATP binding site [chemical binding]; other site 401053009334 Q-loop/lid; other site 401053009335 ABC transporter signature motif; other site 401053009336 Walker B; other site 401053009337 D-loop; other site 401053009338 H-loop/switch region; other site 401053009339 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 401053009340 Putative glucoamylase; Region: Glycoamylase; pfam10091 401053009341 Chorismate mutase type II; Region: CM_2; cl00693 401053009342 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 401053009343 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 401053009344 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 401053009345 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 401053009346 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 401053009347 N-terminal plug; other site 401053009348 ligand-binding site [chemical binding]; other site 401053009349 biotin synthase; Region: bioB; TIGR00433 401053009350 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 401053009351 FeS/SAM binding site; other site 401053009352 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 401053009353 Bacterial Ig-like domain; Region: Big_5; cl01012 401053009354 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053009355 Helix-turn-helix domains; Region: HTH; cl00088 401053009356 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 401053009357 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 401053009358 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053009359 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053009360 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 401053009361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009362 NAD(P) binding site [chemical binding]; other site 401053009363 active site 401053009364 Helix-turn-helix domains; Region: HTH; cl00088 401053009365 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 401053009366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009367 YCII-related domain; Region: YCII; cl00999 401053009368 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053009369 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053009370 active site 401053009371 TDP-binding site; other site 401053009372 acceptor substrate-binding pocket; other site 401053009373 homodimer interface [polypeptide binding]; other site 401053009374 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053009375 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053009376 homodimer interface [polypeptide binding]; other site 401053009377 active site 401053009378 TDP-binding site; other site 401053009379 acceptor substrate-binding pocket; other site 401053009380 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 401053009381 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 401053009382 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009383 Putative zinc-finger; Region: zf-HC2; cl15806 401053009384 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 401053009385 Anti-sigma-K factor rskA; Region: RskA; pfam10099 401053009386 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 401053009387 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053009388 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 401053009389 DNA binding residues [nucleotide binding] 401053009390 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 401053009391 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 401053009392 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009393 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053009394 Putative zinc-finger; Region: zf-HC2; cl15806 401053009395 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 401053009396 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053009397 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 401053009398 DNA binding residues [nucleotide binding] 401053009399 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053009400 Coenzyme A binding pocket [chemical binding]; other site 401053009401 EamA-like transporter family; Region: EamA; cl01037 401053009402 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 401053009403 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 401053009404 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 401053009405 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 401053009406 Helix-turn-helix domains; Region: HTH; cl00088 401053009407 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 401053009408 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009409 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053009410 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 401053009411 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 401053009412 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 401053009413 putative active site [active] 401053009414 catalytic site [active] 401053009415 putative metal binding site [ion binding]; other site 401053009416 oligomer interface [polypeptide binding]; other site 401053009417 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 401053009418 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 401053009419 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 401053009420 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 401053009421 Active Sites [active] 401053009422 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 401053009423 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 401053009424 G1 box; other site 401053009425 putative GEF interaction site [polypeptide binding]; other site 401053009426 GTP/Mg2+ binding site [chemical binding]; other site 401053009427 Switch I region; other site 401053009428 G2 box; other site 401053009429 CysD dimerization site [polypeptide binding]; other site 401053009430 G3 box; other site 401053009431 Switch II region; other site 401053009432 G4 box; other site 401053009433 G5 box; other site 401053009434 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 401053009435 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 401053009436 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 401053009437 Active Sites [active] 401053009438 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 401053009439 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 401053009440 catalytic residue [active] 401053009441 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 401053009442 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 401053009443 XdhC Rossmann domain; Region: XdhC_C; pfam13478 401053009444 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 401053009445 metal-binding site 401053009446 putative transporter; Provisional; Region: PRK10504 401053009447 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 401053009448 putative substrate translocation pore; other site 401053009449 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 401053009450 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053009451 Helix-turn-helix domains; Region: HTH; cl00088 401053009452 phytoene desaturase; Region: crtI_fam; TIGR02734 401053009453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009455 phytoene desaturase; Region: crtI_fam; TIGR02734 401053009456 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 401053009457 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053009458 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 401053009459 DNA binding residues [nucleotide binding] 401053009460 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 401053009461 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 401053009462 OpgC protein; Region: OpgC_C; cl00792 401053009463 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 401053009464 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053009465 metal binding site [ion binding]; metal-binding site 401053009466 active site 401053009467 I-site; other site 401053009468 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 401053009469 Helix-turn-helix domains; Region: HTH; cl00088 401053009470 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053009471 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053009472 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053009473 FtsX-like permease family; Region: FtsX; cl15850 401053009474 Creatinine amidohydrolase; Region: Creatininase; cl00618 401053009475 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053009476 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053009477 FtsX-like permease family; Region: FtsX; cl15850 401053009478 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053009479 FtsX-like permease family; Region: FtsX; cl15850 401053009480 Helix-turn-helix domains; Region: HTH; cl00088 401053009481 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cd06551 401053009482 putative acyl-acceptor binding pocket; other site 401053009483 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 401053009484 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 401053009485 active site 401053009486 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 401053009487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009488 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 401053009489 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 401053009490 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 401053009491 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 401053009492 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 401053009493 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053009494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009495 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053009496 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 401053009497 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 401053009498 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 401053009499 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009500 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053009501 GTP-binding protein LepA; Provisional; Region: PRK05433 401053009502 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 401053009503 G1 box; other site 401053009504 putative GEF interaction site [polypeptide binding]; other site 401053009505 GTP/Mg2+ binding site [chemical binding]; other site 401053009506 Switch I region; other site 401053009507 G2 box; other site 401053009508 G3 box; other site 401053009509 Switch II region; other site 401053009510 G4 box; other site 401053009511 G5 box; other site 401053009512 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 401053009513 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 401053009514 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 401053009515 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 401053009516 N-acetyl-D-glucosamine binding site [chemical binding]; other site 401053009517 catalytic residue [active] 401053009518 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 401053009519 putative peptidoglycan binding site; other site 401053009520 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 401053009521 putative peptidoglycan binding site; other site 401053009522 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 401053009523 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 401053009524 catalytic triad [active] 401053009525 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 401053009526 Predicted transcriptional regulator [Transcription]; Region: COG2944 401053009527 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 401053009528 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 401053009529 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 401053009530 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 401053009531 active site 401053009532 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 401053009533 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 401053009534 classical (c) SDRs; Region: SDR_c; cd05233 401053009535 NAD(P) binding site [chemical binding]; other site 401053009536 active site 401053009537 Protein of unknown function (DUF419); Region: DUF419; cl15265 401053009538 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 401053009539 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 401053009540 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 401053009541 active site 401053009542 HIGH motif; other site 401053009543 dimer interface [polypeptide binding]; other site 401053009544 KMSKS motif; other site 401053009545 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053009546 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053009547 Probable zinc-binding domain; Region: zf-trcl; pfam13451 401053009548 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 401053009549 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 401053009550 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 401053009551 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 401053009552 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 401053009553 OpgC protein; Region: OpgC_C; cl00792 401053009554 Acyltransferase family; Region: Acyl_transf_3; pfam01757 401053009555 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 401053009556 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 401053009557 trimer interface [polypeptide binding]; other site 401053009558 active site 401053009559 substrate binding site [chemical binding]; other site 401053009560 CoA binding site [chemical binding]; other site 401053009561 MatE; Region: MatE; cl10513 401053009562 Cupin domain; Region: Cupin_2; cl09118 401053009563 Cupin domain; Region: Cupin_2; cl09118 401053009564 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 401053009565 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053009566 maltose O-acetyltransferase; Provisional; Region: PRK10092 401053009567 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 401053009568 active site 401053009569 substrate binding site [chemical binding]; other site 401053009570 trimer interface [polypeptide binding]; other site 401053009571 CoA binding site [chemical binding]; other site 401053009572 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 401053009573 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053009574 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 401053009575 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 401053009576 Helix-turn-helix domains; Region: HTH; cl00088 401053009577 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 401053009578 FMN binding site [chemical binding]; other site 401053009579 active site 401053009580 substrate binding site [chemical binding]; other site 401053009581 catalytic residue [active] 401053009582 Dienelactone hydrolase family; Region: DLH; pfam01738 401053009583 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053009584 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 401053009585 putative catalytic residues [active] 401053009586 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 401053009587 putative catalytic residues [active] 401053009588 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 401053009589 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 401053009590 ligand binding site [chemical binding]; other site 401053009591 flexible hinge region; other site 401053009592 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 401053009593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009594 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053009595 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 401053009596 Helix-turn-helix domains; Region: HTH; cl00088 401053009597 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 401053009598 dimerization interface [polypeptide binding]; other site 401053009599 substrate binding pocket [chemical binding]; other site 401053009600 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 401053009601 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 401053009602 active site 401053009603 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 401053009604 homotrimer interaction site [polypeptide binding]; other site 401053009605 putative active site [active] 401053009606 CrcB-like protein; Region: CRCB; cl09114 401053009607 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 401053009608 Helix-turn-helix domains; Region: HTH; cl00088 401053009609 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 401053009610 dimerization interface [polypeptide binding]; other site 401053009611 substrate binding pocket [chemical binding]; other site 401053009612 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 401053009613 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053009614 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 401053009615 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 401053009616 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 401053009617 Moco binding site; other site 401053009618 metal coordination site [ion binding]; other site 401053009619 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 401053009620 S-adenosylmethionine binding site [chemical binding]; other site 401053009621 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 401053009622 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 401053009623 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 401053009624 Ligand binding site; other site 401053009625 Putative Catalytic site; other site 401053009626 DXD motif; other site 401053009627 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053009628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009629 NAD(P) binding site [chemical binding]; other site 401053009630 active site 401053009631 Epoxide hydrolase N terminus; Region: EHN; pfam06441 401053009632 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 401053009633 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 401053009634 active site 401053009635 DNA binding site [nucleotide binding] 401053009636 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 401053009637 active site 401053009638 SUMO-1 interface [polypeptide binding]; other site 401053009639 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 401053009640 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 401053009641 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 401053009642 Helix-turn-helix domains; Region: HTH; cl00088 401053009643 ParB-like nuclease domain; Region: ParBc; cl02129 401053009644 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 401053009645 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 401053009646 chromosome segregation protein; Provisional; Region: PRK03918 401053009647 AAA domain; Region: AAA_21; pfam13304 401053009648 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 401053009649 Q-loop/lid; other site 401053009650 ABC transporter signature motif; other site 401053009651 Walker B; other site 401053009652 D-loop; other site 401053009653 H-loop/switch region; other site 401053009654 Domain of unknown function (DUF955); Region: DUF955; cl01076 401053009655 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 401053009656 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053009657 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 401053009658 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 401053009659 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 401053009660 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 401053009661 hypothetical protein; Provisional; Region: PRK06153 401053009662 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 401053009663 ATP binding site [chemical binding]; other site 401053009664 substrate interface [chemical binding]; other site 401053009665 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 401053009666 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053009667 active site 401053009668 metal binding site [ion binding]; metal-binding site 401053009669 DNA binding site [nucleotide binding] 401053009670 AAA domain; Region: AAA_27; pfam13514 401053009671 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 401053009672 TrwC relaxase; Region: TrwC; pfam08751 401053009673 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 401053009674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053009675 Family description; Region: UvrD_C_2; cl15862 401053009676 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 401053009677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053009678 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 401053009679 Walker A motif; other site 401053009680 ATP binding site [chemical binding]; other site 401053009681 Walker B motif; other site 401053009682 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 401053009683 dimer interface [polypeptide binding]; other site 401053009684 ssDNA binding site [nucleotide binding]; other site 401053009685 tetramer (dimer of dimers) interface [polypeptide binding]; other site 401053009686 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 401053009687 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053009688 Walker A motif; other site 401053009689 ATP binding site [chemical binding]; other site 401053009690 Walker B motif; other site 401053009691 VirB8 protein; Region: VirB8; cl01500 401053009692 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 401053009693 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 401053009694 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 401053009695 VirB7 interaction site; other site 401053009696 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 401053009697 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 401053009698 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 401053009699 Transcriptional regulator [Transcription]; Region: LysR; COG0583 401053009700 Helix-turn-helix domains; Region: HTH; cl00088 401053009701 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 401053009702 dimerization interface [polypeptide binding]; other site 401053009703 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 401053009704 integrase; Provisional; Region: int; PHA02601 401053009705 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 401053009706 DNA binding site [nucleotide binding] 401053009707 Int/Topo IB signature motif; other site 401053009708 active site 401053009709 adenosine deaminase-related growth factor; Region: adm_rel; TIGR01431 401053009710 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 401053009711 active site 401053009712 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 401053009713 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 401053009714 Helix-turn-helix domains; Region: HTH; cl00088 401053009715 Integrase core domain; Region: rve; cl01316 401053009716 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 401053009717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009718 Ferrochelatase; Region: Ferrochelatase; pfam00762 401053009719 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 401053009720 C-terminal domain interface [polypeptide binding]; other site 401053009721 active site 401053009722 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 401053009723 active site 401053009724 N-terminal domain interface [polypeptide binding]; other site 401053009725 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 401053009726 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 401053009727 substrate binding site [chemical binding]; other site 401053009728 active site 401053009729 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 401053009730 ribonuclease R; Region: RNase_R; TIGR02063 401053009731 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 401053009732 RNB domain; Region: RNB; pfam00773 401053009733 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 401053009734 RNA binding site [nucleotide binding]; other site 401053009735 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053009736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009737 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 401053009738 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009739 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 401053009740 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 401053009741 Probable Catalytic site; other site 401053009742 metal-binding site 401053009743 Y-family of DNA polymerases; Region: PolY; cd00424 401053009744 DNA polymerase IV; Reviewed; Region: PRK03103 401053009745 active site 401053009746 DNA binding site [nucleotide binding] 401053009747 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 401053009748 OpgC protein; Region: OpgC_C; cl00792 401053009749 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053009750 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 401053009751 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053009752 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 401053009753 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 401053009754 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 401053009755 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 401053009756 DinB superfamily; Region: DinB_2; pfam12867 401053009757 CHC2 zinc finger; Region: zf-CHC2; cl15369 401053009758 DNA primase; Validated; Region: dnaG; PRK05667 401053009759 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 401053009760 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 401053009761 active site 401053009762 metal binding site [ion binding]; metal-binding site 401053009763 interdomain interaction site; other site 401053009764 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 401053009765 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 401053009766 Phospholipid methyltransferase; Region: PEMT; cl00763 401053009767 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 401053009768 putative active site [active] 401053009769 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 401053009770 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 401053009771 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 401053009772 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 401053009773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053009774 Coenzyme A binding pocket [chemical binding]; other site 401053009775 PAS fold; Region: PAS_4; pfam08448 401053009776 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053009777 metal binding site [ion binding]; metal-binding site 401053009778 active site 401053009779 I-site; other site 401053009780 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 401053009781 trimer interface [polypeptide binding]; other site 401053009782 active site 401053009783 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 401053009784 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 401053009785 dimerization interface [polypeptide binding]; other site 401053009786 ATP binding site [chemical binding]; other site 401053009787 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 401053009788 dimerization interface [polypeptide binding]; other site 401053009789 ATP binding site [chemical binding]; other site 401053009790 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 401053009791 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 401053009792 active site 401053009793 NTP binding site [chemical binding]; other site 401053009794 metal binding triad [ion binding]; metal-binding site 401053009795 antibiotic binding site [chemical binding]; other site 401053009796 amidophosphoribosyltransferase; Provisional; Region: PRK09123 401053009797 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 401053009798 active site 401053009799 tetramer interface [polypeptide binding]; other site 401053009800 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 401053009801 active site 401053009802 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 401053009803 active site 401053009804 metal binding site [ion binding]; metal-binding site 401053009805 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 401053009806 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009807 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 401053009808 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 401053009809 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 401053009810 active site 401053009811 catalytic site [active] 401053009812 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 401053009813 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 401053009814 ATP-grasp domain; Region: ATP-grasp_4; cl03087 401053009815 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 401053009816 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 401053009817 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 401053009818 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 401053009819 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 401053009820 homotrimer interaction site [polypeptide binding]; other site 401053009821 putative active site [active] 401053009822 aconitate hydratase; Validated; Region: PRK09277 401053009823 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 401053009824 substrate binding site [chemical binding]; other site 401053009825 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 401053009826 ligand binding site [chemical binding]; other site 401053009827 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 401053009828 substrate binding site [chemical binding]; other site 401053009829 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 401053009830 putative active site [active] 401053009831 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 401053009832 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 401053009833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009834 short chain dehydrogenase; Provisional; Region: PRK06180 401053009835 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 401053009836 NADP binding site [chemical binding]; other site 401053009837 active site 401053009838 steroid binding site; other site 401053009839 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 401053009840 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 401053009841 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053009842 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 401053009843 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 401053009844 putative active site [active] 401053009845 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 401053009846 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 401053009847 active site 401053009848 catalytic site [active] 401053009849 Protein of unknown function, DUF606; Region: DUF606; cl01273 401053009850 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 401053009851 Protein of unknown function (DUF419); Region: DUF419; cl15265 401053009852 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 401053009853 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053009854 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009855 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 401053009856 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053009857 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 401053009858 active site 401053009859 metal binding site [ion binding]; metal-binding site 401053009860 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 401053009861 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053009862 active site 401053009863 metal binding site [ion binding]; metal-binding site 401053009864 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 401053009865 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 401053009866 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 401053009867 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 401053009868 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 401053009869 homotrimer interaction site [polypeptide binding]; other site 401053009870 putative active site [active] 401053009871 DinB superfamily; Region: DinB_2; pfam12867 401053009872 Predicted ATPase [General function prediction only]; Region: COG3910 401053009873 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053009874 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 401053009875 Walker A/P-loop; other site 401053009876 ATP binding site [chemical binding]; other site 401053009877 Q-loop/lid; other site 401053009878 ABC transporter signature motif; other site 401053009879 Walker B; other site 401053009880 D-loop; other site 401053009881 H-loop/switch region; other site 401053009882 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 401053009883 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 401053009884 FeS/SAM binding site; other site 401053009885 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 401053009886 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 401053009887 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 401053009888 RNA binding surface [nucleotide binding]; other site 401053009889 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 401053009890 Sporulation related domain; Region: SPOR; cl10051 401053009891 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 401053009892 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 401053009893 active site 401053009894 phosphorylation site [posttranslational modification] 401053009895 intermolecular recognition site; other site 401053009896 dimerization interface [polypeptide binding]; other site 401053009897 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 401053009898 DNA binding residues [nucleotide binding] 401053009899 dimerization interface [polypeptide binding]; other site 401053009900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 401053009901 Histidine kinase; Region: HisKA_3; pfam07730 401053009902 ABC-2 type transporter; Region: ABC2_membrane; cl11417 401053009903 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 401053009904 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 401053009905 Walker A/P-loop; other site 401053009906 ATP binding site [chemical binding]; other site 401053009907 Q-loop/lid; other site 401053009908 ABC transporter signature motif; other site 401053009909 Walker B; other site 401053009910 D-loop; other site 401053009911 H-loop/switch region; other site 401053009912 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053009913 threonine dehydratase; Provisional; Region: PRK08198 401053009914 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 401053009915 tetramer interface [polypeptide binding]; other site 401053009916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053009917 catalytic residue [active] 401053009918 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 401053009919 Helix-turn-helix domains; Region: HTH; cl00088 401053009920 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 401053009921 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 401053009922 putative substrate translocation pore; other site 401053009923 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 401053009924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053009925 Prephenate dehydrogenase; Region: PDH; pfam02153 401053009926 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 401053009927 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 401053009928 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 401053009929 NeuB family; Region: NeuB; cl00496 401053009930 Chorismate mutase type II; Region: CM_2; cl00693 401053009931 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 401053009932 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 401053009933 substrate binding site [chemical binding]; other site 401053009934 active site 401053009935 catalytic residues [active] 401053009936 heterodimer interface [polypeptide binding]; other site 401053009937 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 401053009938 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 401053009939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053009940 catalytic residue [active] 401053009941 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 401053009942 Putative zinc-finger; Region: zf-HC2; cl15806 401053009943 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 401053009944 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053009945 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 401053009946 DNA binding residues [nucleotide binding] 401053009947 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 401053009948 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053009949 active site 401053009950 metal binding site [ion binding]; metal-binding site 401053009951 Haem-binding domain; Region: Haem_bd; pfam14376 401053009952 Cytochrome c; Region: Cytochrom_C; cl11414 401053009953 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 401053009954 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 401053009955 active site 401053009956 catalytic site [active] 401053009957 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 401053009958 active site 401053009959 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 401053009960 active site 401053009961 ribulose/triose binding site [chemical binding]; other site 401053009962 phosphate binding site [ion binding]; other site 401053009963 substrate (anthranilate) binding pocket [chemical binding]; other site 401053009964 product (indole) binding pocket [chemical binding]; other site 401053009965 Response regulator receiver domain; Region: Response_reg; pfam00072 401053009966 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 401053009967 active site 401053009968 phosphorylation site [posttranslational modification] 401053009969 intermolecular recognition site; other site 401053009970 dimerization interface [polypeptide binding]; other site 401053009971 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 401053009972 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 401053009973 Tetratricopeptide repeat; Region: TPR_12; pfam13424 401053009974 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 401053009975 binding surface 401053009976 TPR motif; other site 401053009977 TPR repeat; Region: TPR_11; pfam13414 401053009978 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 401053009979 AMIN domain; Region: AMIN; pfam11741 401053009980 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 401053009981 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 401053009982 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 401053009983 active site 401053009984 metal binding site [ion binding]; metal-binding site 401053009985 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 401053009986 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 401053009987 motif 1; other site 401053009988 active site 401053009989 motif 2; other site 401053009990 motif 3; other site 401053009991 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 401053009992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053009993 metal binding site [ion binding]; metal-binding site 401053009994 active site 401053009995 I-site; other site 401053009996 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 401053009997 RecX family; Region: RecX; cl00936 401053009998 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 401053009999 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 401053010000 DNA gyrase subunit A; Validated; Region: PRK05560 401053010001 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 401053010002 CAP-like domain; other site 401053010003 active site 401053010004 primary dimer interface [polypeptide binding]; other site 401053010005 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 401053010006 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 401053010007 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 401053010008 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 401053010009 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 401053010010 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 401053010011 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 401053010012 S-adenosylmethionine binding site [chemical binding]; other site 401053010013 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 401053010014 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12859 401053010015 NADP binding site [chemical binding]; other site 401053010016 substrate binding site [chemical binding]; other site 401053010017 active site 401053010018 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 401053010019 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053010020 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053010021 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053010022 FtsX-like permease family; Region: FtsX; cl15850 401053010023 Helix-turn-helix domains; Region: HTH; cl00088 401053010024 TolB amino-terminal domain; Region: TolB_N; cl00639 401053010025 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 401053010026 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053010027 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 401053010028 Disaggregatase related; Region: Disaggr_assoc; pfam08480 401053010029 glycerol kinase; Provisional; Region: glpK; PRK00047 401053010030 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 401053010031 N- and C-terminal domain interface [polypeptide binding]; other site 401053010032 active site 401053010033 MgATP binding site [chemical binding]; other site 401053010034 catalytic site [active] 401053010035 metal binding site [ion binding]; metal-binding site 401053010036 glycerol binding site [chemical binding]; other site 401053010037 homotetramer interface [polypeptide binding]; other site 401053010038 homodimer interface [polypeptide binding]; other site 401053010039 FBP binding site [chemical binding]; other site 401053010040 protein IIAGlc interface [polypeptide binding]; other site 401053010041 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 401053010042 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 401053010043 amphipathic channel; other site 401053010044 Asn-Pro-Ala signature motifs; other site 401053010045 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 401053010046 catalytic residues [active] 401053010047 dimer interface [polypeptide binding]; other site 401053010048 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 401053010049 DNA-binding site [nucleotide binding]; DNA binding site 401053010050 RNA-binding motif; other site 401053010051 Protein of unknown function, DUF480; Region: DUF480; cl01209 401053010052 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 401053010053 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053010054 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 401053010055 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053010056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010057 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 401053010058 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053010059 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053010060 homodimer interface [polypeptide binding]; other site 401053010061 active site 401053010062 TDP-binding site; other site 401053010063 acceptor substrate-binding pocket; other site 401053010064 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053010065 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053010066 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053010067 FtsX-like permease family; Region: FtsX; cl15850 401053010068 Helix-turn-helix domains; Region: HTH; cl00088 401053010069 Peptidase M15; Region: Peptidase_M15_3; cl01194 401053010070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 401053010071 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 401053010072 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 401053010073 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 401053010074 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 401053010075 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 401053010076 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 401053010077 S-adenosylmethionine binding site [chemical binding]; other site 401053010078 Fic/DOC family; Region: Fic; cl00960 401053010079 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 401053010080 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; cl01770 401053010081 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 401053010082 putative hydrophobic ligand binding site [chemical binding]; other site 401053010083 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 401053010084 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 401053010085 NAD binding site [chemical binding]; other site 401053010086 catalytic Zn binding site [ion binding]; other site 401053010087 structural Zn binding site [ion binding]; other site 401053010088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010089 Predicted bile acid beta-glucosidase [Carbohydrate transport and metabolism]; Region: COG4354 401053010090 Domain of unknown function (DUF1793); Region: DUF1793; pfam08760 401053010091 hydroperoxidase II; Provisional; Region: katE; PRK11249 401053010092 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 401053010093 heme binding pocket [chemical binding]; other site 401053010094 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 401053010095 domain interactions; other site 401053010096 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053010097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010098 NAD(P) binding site [chemical binding]; other site 401053010099 active site 401053010100 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 401053010101 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 401053010102 putative NAD(P) binding site [chemical binding]; other site 401053010103 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 401053010104 dimerization interface [polypeptide binding]; other site 401053010105 putative DNA binding site [nucleotide binding]; other site 401053010106 putative Zn2+ binding site [ion binding]; other site 401053010107 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 401053010108 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 401053010109 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 401053010110 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 401053010111 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 401053010112 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 401053010113 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 401053010114 putative active site [active] 401053010115 catalytic residue [active] 401053010116 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 401053010117 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 401053010118 5S rRNA interface [nucleotide binding]; other site 401053010119 CTC domain interface [polypeptide binding]; other site 401053010120 L16 interface [polypeptide binding]; other site 401053010121 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 401053010122 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 401053010123 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 401053010124 active site 401053010125 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 401053010126 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 401053010127 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 401053010128 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053010129 active site 401053010130 TDP-binding site; other site 401053010131 acceptor substrate-binding pocket; other site 401053010132 homodimer interface [polypeptide binding]; other site 401053010133 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 401053010134 putative dimer interface [polypeptide binding]; other site 401053010135 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 401053010136 Clp amino terminal domain; Region: Clp_N; pfam02861 401053010137 Clp amino terminal domain; Region: Clp_N; pfam02861 401053010138 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 401053010139 Walker A motif; other site 401053010140 ATP binding site [chemical binding]; other site 401053010141 Walker B motif; other site 401053010142 arginine finger; other site 401053010143 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 401053010144 Walker A motif; other site 401053010145 ATP binding site [chemical binding]; other site 401053010146 Walker B motif; other site 401053010147 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 401053010148 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053010149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010150 NAD(P) binding site [chemical binding]; other site 401053010151 active site 401053010152 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 401053010153 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 401053010154 active site 401053010155 metal binding site [ion binding]; metal-binding site 401053010156 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 401053010157 active site 401053010158 metal binding site [ion binding]; metal-binding site 401053010159 hypothetical protein; Provisional; Region: PRK07208 401053010160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010161 UDP-galactopyranose mutase; Region: GLF; pfam03275 401053010162 TPR repeat; Region: TPR_11; pfam13414 401053010163 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 401053010164 binding surface 401053010165 TPR motif; other site 401053010166 TPR repeat; Region: TPR_11; pfam13414 401053010167 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 401053010168 binding surface 401053010169 TPR motif; other site 401053010170 TPR repeat; Region: TPR_11; pfam13414 401053010171 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 401053010172 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 401053010173 peptide chain release factor 1; Validated; Region: prfA; PRK00591 401053010174 RF-1 domain; Region: RF-1; cl02875 401053010175 RF-1 domain; Region: RF-1; cl02875 401053010176 Helix-turn-helix domains; Region: HTH; cl00088 401053010177 short chain dehydrogenase; Provisional; Region: PRK06180 401053010178 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 401053010179 NADP binding site [chemical binding]; other site 401053010180 active site 401053010181 steroid binding site; other site 401053010182 short chain dehydrogenase; Provisional; Region: PRK06197 401053010183 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 401053010184 putative NAD(P) binding site [chemical binding]; other site 401053010185 active site 401053010186 ATP-dependent DNA ligase; Validated; Region: PRK09247 401053010187 Adenylation domain of ATP-dependent DNA Ligases; Region: Adenylation_DNA_ligase; cd07898 401053010188 active site 401053010189 DNA binding site [nucleotide binding] 401053010190 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 401053010191 DNA binding site [nucleotide binding] 401053010192 Amino acid permease; Region: AA_permease_2; pfam13520 401053010193 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 401053010194 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; cl00284 401053010195 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 401053010196 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 401053010197 active site 401053010198 catalytic tetrad [active] 401053010199 Cation efflux family; Region: Cation_efflux; cl00316 401053010200 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 401053010201 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 401053010202 catalytic loop [active] 401053010203 iron binding site [ion binding]; other site 401053010204 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 401053010205 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 401053010206 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 401053010207 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 401053010208 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 401053010209 Helix-turn-helix domains; Region: HTH; cl00088 401053010210 Integrase core domain; Region: rve; cl01316 401053010211 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 401053010212 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053010213 Cytochrome c; Region: Cytochrom_C; cl11414 401053010214 lipoyl synthase; Provisional; Region: PRK05481 401053010215 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 401053010216 FeS/SAM binding site; other site 401053010217 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 401053010218 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 401053010219 ribosome recycling factor; Reviewed; Region: frr; PRK00083 401053010220 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 401053010221 hinge region; other site 401053010222 YcfA-like protein; Region: YcfA; cl00752 401053010223 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 401053010224 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 401053010225 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 401053010226 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 401053010227 putative [4Fe-4S] binding site [ion binding]; other site 401053010228 putative molybdopterin cofactor binding site [chemical binding]; other site 401053010229 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 401053010230 molybdopterin cofactor binding site; other site 401053010231 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 401053010232 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 401053010233 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 401053010234 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 401053010235 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 401053010236 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 401053010237 Surface antigen; Region: Bac_surface_Ag; cl03097 401053010238 ribonuclease E; Reviewed; Region: rne; PRK10811 401053010239 RDD family; Region: RDD; cl00746 401053010240 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 401053010241 Organic solvent tolerance protein; Region: OstA_C; pfam04453 401053010242 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 401053010243 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 401053010244 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 401053010245 SurA N-terminal domain; Region: SurA_N_3; cl07813 401053010246 PPIC-type PPIASE domain; Region: Rotamase; cl08278 401053010247 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 401053010248 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053010249 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 401053010250 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 401053010251 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 401053010252 TPR motif; other site 401053010253 binding surface 401053010254 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 401053010255 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 401053010256 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 401053010257 Gram-negative bacterial tonB protein; Region: TonB; cl10048 401053010258 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053010259 Coenzyme A binding pocket [chemical binding]; other site 401053010260 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 401053010261 photolyase PhrII; Region: phr2; TIGR00591 401053010262 DNA photolyase; Region: DNA_photolyase; pfam00875 401053010263 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 401053010264 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 401053010265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010266 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 401053010267 active site 401053010268 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 401053010269 YceG-like family; Region: YceG; pfam02618 401053010270 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 401053010271 dimerization interface [polypeptide binding]; other site 401053010272 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 401053010273 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 401053010274 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 401053010275 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 401053010276 KTSC domain; Region: KTSC; pfam13619 401053010277 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 401053010278 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 401053010279 active site 401053010280 phosphate binding residues; other site 401053010281 catalytic residues [active] 401053010282 Maf-like protein; Region: Maf; pfam02545 401053010283 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 401053010284 active site 401053010285 dimer interface [polypeptide binding]; other site 401053010286 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 401053010287 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 401053010288 metal binding site [ion binding]; metal-binding site 401053010289 dimer interface [polypeptide binding]; other site 401053010290 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053010291 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 401053010292 PA/protease or protease-like domain interface [polypeptide binding]; other site 401053010293 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 401053010294 metal binding site [ion binding]; metal-binding site 401053010295 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053010296 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 401053010297 putative hydrophobic ligand binding site [chemical binding]; other site 401053010298 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 401053010299 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 401053010300 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 401053010301 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010302 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 401053010303 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 401053010304 catalytic center binding site [active] 401053010305 ATP binding site [chemical binding]; other site 401053010306 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 401053010307 homodimer interface [polypeptide binding]; other site 401053010308 active site 401053010309 TDP-binding site; other site 401053010310 acceptor substrate-binding pocket; other site 401053010311 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 401053010312 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 401053010313 FeS/SAM binding site; other site 401053010314 NMT1-like family; Region: NMT1_2; cl15260 401053010315 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 401053010316 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 401053010317 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 401053010318 FeS/SAM binding site; other site 401053010319 NMT1-like family; Region: NMT1_2; cl15260 401053010320 Glycosyl hydrolase family 79, N-terminal domain; Region: Glyco_hydro_79n; pfam03662 401053010321 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 401053010322 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 401053010323 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 401053010324 TPR repeat; Region: TPR_11; pfam13414 401053010325 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 401053010326 TPR motif; other site 401053010327 binding surface 401053010328 TPR repeat; Region: TPR_11; pfam13414 401053010329 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 401053010330 binding surface 401053010331 TPR motif; other site 401053010332 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 401053010333 Preprotein translocase subunit; Region: YajC; cl00806 401053010334 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 401053010335 Protein export membrane protein; Region: SecD_SecF; cl14618 401053010336 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 401053010337 Protein export membrane protein; Region: SecD_SecF; cl14618 401053010338 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 401053010339 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 401053010340 Subunit I/III interface [polypeptide binding]; other site 401053010341 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 401053010342 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 401053010343 D-pathway; other site 401053010344 Low-spin heme binding site [chemical binding]; other site 401053010345 Putative water exit pathway; other site 401053010346 Binuclear center (active site) [active] 401053010347 K-pathway; other site 401053010348 Putative proton exit pathway; other site 401053010349 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 401053010350 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 401053010351 Cytochrome c; Region: Cytochrom_C; cl11414 401053010352 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 401053010353 Cu(I) binding site [ion binding]; other site 401053010354 Cytochrome c; Region: Cytochrom_C; cl11414 401053010355 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 401053010356 Polysulphide reductase, NrfD; Region: NrfD; cl01295 401053010357 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 401053010358 molybdopterin cofactor binding site; other site 401053010359 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 401053010360 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 401053010361 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 401053010362 heme-binding residues [chemical binding]; other site 401053010363 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053010364 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 401053010365 iron-sulfur cluster [ion binding]; other site 401053010366 [2Fe-2S] cluster binding site [ion binding]; other site 401053010367 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 401053010368 hydrophobic ligand binding site; other site 401053010369 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 401053010370 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 401053010371 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 401053010372 endonuclease III; Region: ENDO3c; smart00478 401053010373 minor groove reading motif; other site 401053010374 helix-hairpin-helix signature motif; other site 401053010375 substrate binding pocket [chemical binding]; other site 401053010376 active site 401053010377 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 401053010378 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 401053010379 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053010380 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 401053010381 FtsX-like permease family; Region: FtsX; cl15850 401053010382 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053010383 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 401053010384 FtsX-like permease family; Region: FtsX; cl15850 401053010385 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053010386 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 401053010387 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053010388 Coenzyme A binding pocket [chemical binding]; other site 401053010389 YcxB-like protein; Region: YcxB; pfam14317 401053010390 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 401053010391 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053010392 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 401053010393 PA/protease or protease-like domain interface [polypeptide binding]; other site 401053010394 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 401053010395 metal binding site [ion binding]; metal-binding site 401053010396 Predicted membrane protein [Function unknown]; Region: COG3918 401053010397 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 401053010398 active site 401053010399 catalytic residues [active] 401053010400 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 401053010401 mercuric reductase; Validated; Region: PRK06370 401053010402 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 401053010403 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 401053010404 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 401053010405 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 401053010406 dimer interface [polypeptide binding]; other site 401053010407 glycine-pyridoxal phosphate binding site [chemical binding]; other site 401053010408 active site 401053010409 folate binding site [chemical binding]; other site 401053010410 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 401053010411 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 401053010412 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 401053010413 FMN binding site [chemical binding]; other site 401053010414 substrate binding site [chemical binding]; other site 401053010415 putative catalytic residue [active] 401053010416 Protein of unknown function, DUF488; Region: DUF488; cl01246 401053010417 alanine racemase; Reviewed; Region: alr; PRK00053 401053010418 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 401053010419 active site 401053010420 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 401053010421 dimer interface [polypeptide binding]; other site 401053010422 substrate binding site [chemical binding]; other site 401053010423 catalytic residues [active] 401053010424 Helix-turn-helix domains; Region: HTH; cl00088 401053010425 WYL domain; Region: WYL; cl14852 401053010426 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 401053010427 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 401053010428 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 401053010429 putative substrate translocation pore; other site 401053010430 replicative DNA helicase; Region: DnaB; TIGR00665 401053010431 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 401053010432 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 401053010433 Walker A motif; other site 401053010434 ATP binding site [chemical binding]; other site 401053010435 Walker B motif; other site 401053010436 DNA binding loops [nucleotide binding] 401053010437 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 401053010438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010439 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 401053010440 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 401053010441 oligomeric interface; other site 401053010442 putative active site [active] 401053010443 homodimer interface [polypeptide binding]; other site 401053010444 short chain dehydrogenase; Provisional; Region: PRK06914 401053010445 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 401053010446 NADP binding site [chemical binding]; other site 401053010447 active site 401053010448 steroid binding site; other site 401053010449 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 401053010450 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 401053010451 active site residue [active] 401053010452 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 401053010453 EamA-like transporter family; Region: EamA; cl01037 401053010454 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; cl00284 401053010455 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053010456 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; cl00284 401053010457 GTPase CgtA; Reviewed; Region: obgE; PRK12299 401053010458 GTP1/OBG; Region: GTP1_OBG; pfam01018 401053010459 Obg GTPase; Region: Obg; cd01898 401053010460 G1 box; other site 401053010461 GTP/Mg2+ binding site [chemical binding]; other site 401053010462 Switch I region; other site 401053010463 G2 box; other site 401053010464 G3 box; other site 401053010465 Switch II region; other site 401053010466 G4 box; other site 401053010467 G5 box; other site 401053010468 Helix-turn-helix domains; Region: HTH; cl00088 401053010469 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053010470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010471 NAD(P) binding site [chemical binding]; other site 401053010472 active site 401053010473 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 401053010474 alpha-galactosidase; Region: PLN02899 401053010475 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 401053010476 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 401053010477 active site 401053010478 (T/H)XGH motif; other site 401053010479 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 401053010480 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 401053010481 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 401053010482 metal binding site [ion binding]; metal-binding site 401053010483 putative dimer interface [polypeptide binding]; other site 401053010484 Protein of unknown function (DUF3738); Region: DUF3738; cl11887 401053010485 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; cd00085 401053010486 active site 401053010487 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; cl15754 401053010488 cofactor binding site; other site 401053010489 DNA binding site [nucleotide binding] 401053010490 substrate interaction site [chemical binding]; other site 401053010491 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 401053010492 Transcriptional regulator [Transcription]; Region: LysR; COG0583 401053010493 Helix-turn-helix domains; Region: HTH; cl00088 401053010494 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 401053010495 dimerization interface [polypeptide binding]; other site 401053010496 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 401053010497 Oligomerisation domain; Region: Oligomerisation; cl00519 401053010498 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 401053010499 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; cl00284 401053010500 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 401053010501 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 401053010502 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053010503 ATP binding site [chemical binding]; other site 401053010504 Walker B motif; other site 401053010505 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 401053010506 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 401053010507 Zn binding site [ion binding]; other site 401053010508 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 401053010509 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 401053010510 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 401053010511 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 401053010512 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 401053010513 putative substrate translocation pore; other site 401053010514 MerC mercury resistance protein; Region: MerC; cl03934 401053010515 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 401053010516 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 401053010517 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 401053010518 Helix-turn-helix domains; Region: HTH; cl00088 401053010519 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 401053010520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010521 NAD(P) binding site [chemical binding]; other site 401053010522 active site 401053010523 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 401053010524 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 401053010525 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 401053010526 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 401053010527 putative active site [active] 401053010528 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 401053010529 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 401053010530 cofactor binding site; other site 401053010531 DNA binding site [nucleotide binding] 401053010532 substrate interaction site [chemical binding]; other site 401053010533 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 401053010534 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 401053010535 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 401053010536 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 401053010537 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 401053010538 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 401053010539 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 401053010540 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 401053010541 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; cl00047 401053010542 ligand binding site [chemical binding]; other site 401053010543 Helix-turn-helix domains; Region: HTH; cl00088 401053010544 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 401053010545 Condensation domain; Region: Condensation; pfam00668 401053010546 Leucine carboxyl methyltransferase; Region: LCM; cl01306 401053010547 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 401053010548 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 401053010549 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 401053010550 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 401053010551 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 401053010552 putative acyl-acceptor binding pocket; other site 401053010553 short chain dehydrogenase; Provisional; Region: PRK08263 401053010554 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 401053010555 NADP binding site [chemical binding]; other site 401053010556 active site 401053010557 steroid binding site; other site 401053010558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053010559 Helix-turn-helix domains; Region: HTH; cl00088 401053010560 WHG domain; Region: WHG; pfam13305 401053010561 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 401053010562 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 401053010563 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 401053010564 active site 401053010565 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 401053010566 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053010567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010568 NAD(P) binding site [chemical binding]; other site 401053010569 active site 401053010570 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 401053010571 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 401053010572 Helix-turn-helix domains; Region: HTH; cl00088 401053010573 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 401053010574 dimerization interface [polypeptide binding]; other site 401053010575 substrate binding pocket [chemical binding]; other site 401053010576 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053010577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010578 NAD(P) binding site [chemical binding]; other site 401053010579 active site 401053010580 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 401053010581 Helix-turn-helix domains; Region: HTH; cl00088 401053010582 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 401053010583 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 401053010584 catalytic triad [active] 401053010585 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; cl15754 401053010586 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 401053010587 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 401053010588 P-loop; other site 401053010589 Magnesium ion binding site [ion binding]; other site 401053010590 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 401053010591 Magnesium ion binding site [ion binding]; other site 401053010592 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053010593 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 401053010594 ParB-like nuclease domain; Region: ParBc; cl02129 401053010595 Phospholipid methyltransferase; Region: PEMT; cl00763 401053010596 MOSC domain; Region: MOSC; pfam03473 401053010597 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 401053010598 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 401053010599 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053010600 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053010601 FtsX-like permease family; Region: FtsX; cl15850 401053010602 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053010603 FtsX-like permease family; Region: FtsX; cl15850 401053010604 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 401053010605 IHF dimer interface [polypeptide binding]; other site 401053010606 IHF - DNA interface [nucleotide binding]; other site 401053010607 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 401053010608 OpgC protein; Region: OpgC_C; cl00792 401053010609 Acyltransferase family; Region: Acyl_transf_3; pfam01757 401053010610 oxidoreductase family protein; Region: PLN02928 401053010611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010612 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 401053010613 Helix-turn-helix domains; Region: HTH; cl00088 401053010614 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 401053010615 dimerization interface [polypeptide binding]; other site 401053010616 substrate binding pocket [chemical binding]; other site 401053010617 FAD binding domain; Region: FAD_binding_3; pfam01494 401053010618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010620 hypothetical protein; Provisional; Region: PRK06834 401053010621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010623 Helix-turn-helix domains; Region: HTH; cl00088 401053010624 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 401053010625 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 401053010626 putative NAD(P) binding site [chemical binding]; other site 401053010627 Family description; Region: VCBS; pfam13517 401053010628 Family description; Region: VCBS; pfam13517 401053010629 Family description; Region: VCBS; pfam13517 401053010630 Family description; Region: VCBS; pfam13517 401053010631 Family description; Region: VCBS; pfam13517 401053010632 Fatty acyltransferase-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: fatty_acyltransferase_like; cd01846 401053010633 active site 401053010634 catalytic triad [active] 401053010635 oxyanion hole [active] 401053010636 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 401053010637 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 401053010638 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 401053010639 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 401053010640 active site residue [active] 401053010641 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 401053010642 dimerization interface [polypeptide binding]; other site 401053010643 putative DNA binding site [nucleotide binding]; other site 401053010644 putative Zn2+ binding site [ion binding]; other site 401053010645 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 401053010646 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 401053010647 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 401053010648 active site residue [active] 401053010649 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 401053010650 active site residue [active] 401053010651 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053010652 M28 Zn-Peptidases; Region: M28_like_4; cd08015 401053010653 metal binding site [ion binding]; metal-binding site 401053010654 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 401053010655 non-specific DNA binding site [nucleotide binding]; other site 401053010656 salt bridge; other site 401053010657 sequence-specific DNA binding site [nucleotide binding]; other site 401053010658 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 401053010659 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 401053010660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053010661 ABC transporter signature motif; other site 401053010662 Walker B; other site 401053010663 D-loop; other site 401053010664 H-loop/switch region; other site 401053010665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053010666 Walker A/P-loop; other site 401053010667 ATP binding site [chemical binding]; other site 401053010668 Q-loop/lid; other site 401053010669 ABC transporter signature motif; other site 401053010670 Walker B; other site 401053010671 D-loop; other site 401053010672 H-loop/switch region; other site 401053010673 circadian clock protein KaiC; Reviewed; Region: PRK09302 401053010674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053010675 Walker A motif; other site 401053010676 ATP binding site [chemical binding]; other site 401053010677 Walker B motif; other site 401053010678 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053010679 Walker A motif; other site 401053010680 ATP binding site [chemical binding]; other site 401053010681 Walker B motif; other site 401053010682 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053010683 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 401053010684 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 401053010685 putative active site [active] 401053010686 heme pocket [chemical binding]; other site 401053010687 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 401053010688 dimer interface [polypeptide binding]; other site 401053010689 phosphorylation site [posttranslational modification] 401053010690 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 401053010691 ATP binding site [chemical binding]; other site 401053010692 Mg2+ binding site [ion binding]; other site 401053010693 G-X-G motif; other site 401053010694 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 401053010695 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 401053010696 DNA binding residues [nucleotide binding] 401053010697 Pectinesterase; Region: Pectinesterase; cl01911 401053010698 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 401053010699 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 401053010700 A new structural DNA glycosylase; Region: AlkD_like; cd06561 401053010701 active site 401053010702 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 401053010703 Coenzyme A binding pocket [chemical binding]; other site 401053010704 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 401053010705 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 401053010706 metal binding site [ion binding]; metal-binding site 401053010707 active site 401053010708 I-site; other site 401053010709 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 401053010710 putative ligand binding site [chemical binding]; other site 401053010711 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 401053010712 dimer interface [polypeptide binding]; other site 401053010713 phosphorylation site [posttranslational modification] 401053010714 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 401053010715 ATP binding site [chemical binding]; other site 401053010716 Mg2+ binding site [ion binding]; other site 401053010717 G-X-G motif; other site 401053010718 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 401053010719 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 401053010720 putative NAD(P) binding site [chemical binding]; other site 401053010721 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 401053010722 putative hydrophobic ligand binding site [chemical binding]; other site 401053010723 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 401053010724 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010725 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 401053010726 putative active site [active] 401053010727 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 401053010728 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 401053010729 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 401053010730 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 401053010731 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 401053010732 active site 401053010733 dimer interface [polypeptide binding]; other site 401053010734 motif 1; other site 401053010735 motif 2; other site 401053010736 motif 3; other site 401053010737 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 401053010738 anticodon binding site; other site 401053010739 aminotransferase; Validated; Region: PRK07777 401053010740 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 401053010741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 401053010742 homodimer interface [polypeptide binding]; other site 401053010743 catalytic residue [active] 401053010744 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 401053010745 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 401053010746 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 401053010747 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 401053010748 motif II; other site 401053010749 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 401053010750 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 401053010751 Walker A motif; other site 401053010752 ATP binding site [chemical binding]; other site 401053010753 Walker B motif; other site 401053010754 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 401053010755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010756 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 401053010757 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 401053010758 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 401053010759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010760 NAD(P) binding site [chemical binding]; other site 401053010761 active site 401053010762 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 401053010763 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 401053010764 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 401053010765 C-terminal peptidase (prc); Region: prc; TIGR00225 401053010766 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 401053010767 protein binding site [polypeptide binding]; other site 401053010768 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 401053010769 Active site serine [active] 401053010770 Helix-turn-helix domains; Region: HTH; cl00088 401053010771 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 401053010772 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053010773 FtsX-like permease family; Region: FtsX; cl15850 401053010774 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 401053010775 FtsX-like permease family; Region: FtsX; cl15850 401053010776 beta-Glucocerebrosidase 2 N terminal; Region: GBA2_N; pfam12215 401053010777 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 401053010778 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 401053010779 Helix-turn-helix domains; Region: HTH; cl00088 401053010780 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 401053010781 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 401053010782 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 401053010783 active site 401053010784 substrate binding site [chemical binding]; other site 401053010785 activation loop (A-loop); other site 401053010786 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 401053010787 TPR motif; other site 401053010788 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 401053010789 DNA polymerase III subunit beta; Validated; Region: PRK05643 401053010790 putative DNA binding surface [nucleotide binding]; other site 401053010791 dimer interface [polypeptide binding]; other site 401053010792 beta-clamp/clamp loader binding surface; other site 401053010793 beta-clamp/translesion DNA polymerase binding surface; other site 401053010794 Cupin domain; Region: Cupin_2; cl09118 401053010795 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 401053010796 M28 Zn-Peptidases; Region: M28_like_4; cd08015 401053010797 metal binding site [ion binding]; metal-binding site 401053010798 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 401053010799 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 401053010800 Cupin domain; Region: Cupin_2; cl09118 401053010801 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 401053010802 D-galactonate transporter; Region: 2A0114; TIGR00893 401053010803 putative substrate translocation pore; other site 401053010804 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 401053010805 RuvA N terminal domain; Region: RuvA_N; pfam01330 401053010806 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 401053010807 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 401053010808 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 401053010809 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 401053010810 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 401053010811 Ca binding site [ion binding]; other site 401053010812 active site 401053010813 catalytic site [active] 401053010814 D-xylulose kinases, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 401053010815 N- and C-terminal domain interface [polypeptide binding]; other site 401053010816 D-xylulose kinase; Region: XylB; TIGR01312 401053010817 active site 401053010818 catalytic site [active] 401053010819 metal binding site [ion binding]; metal-binding site 401053010820 xylulose binding site [chemical binding]; other site 401053010821 ATP binding site [chemical binding]; other site 401053010822 putative homodimer interface [polypeptide binding]; other site 401053010823 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; cl00220 401053010824 catalytic triad [active] 401053010825 conserved cis-peptide bond; other site 401053010826 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 401053010827 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 401053010828 hexamer (dimer of trimers) interface [polypeptide binding]; other site 401053010829 trimer interface [polypeptide binding]; other site 401053010830 substrate binding site [chemical binding]; other site 401053010831 Mn binding site [ion binding]; other site 401053010832 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 401053010833 Sodium:solute symporter family; Region: SSF; cl00456 401053010834 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 401053010835 PQQ-like domain; Region: PQQ_2; pfam13360 401053010836 Trp docking motif [polypeptide binding]; other site 401053010837 putative active site [active] 401053010838 Cytochrome c; Region: Cytochrom_C; cl11414 401053010839 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 401053010840 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 401053010841 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 401053010842 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 401053010843 putative substrate translocation pore; other site 401053010844 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 401053010845 Helix-turn-helix domains; Region: HTH; cl00088 401053010846 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 401053010847 dimerization interface [polypeptide binding]; other site 401053010848 substrate binding pocket [chemical binding]; other site 401053010849 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 401053010850 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 401053010851 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 401053010852 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 401053010853 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06543 401053010854 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 401053010855 dimerization interface [polypeptide binding]; other site 401053010856 active site 401053010857 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 401053010858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 401053010859 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 401053010860 Quinolinate synthetase A protein; Region: NadA; cl00420 401053010861 K+-transporting ATPase, c chain; Region: KdpC; cl00944 401053010862 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 401053010863 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 401053010864 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 401053010865 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 401053010866 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 401053010867 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 401053010868 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 401053010869 active site 401053010870 phosphorylation site [posttranslational modification] 401053010871 intermolecular recognition site; other site 401053010872 dimerization interface [polypeptide binding]; other site 401053010873 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 401053010874 DNA binding site [nucleotide binding] 401053010875 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 401053010876 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 401053010877 Ligand Binding Site [chemical binding]; other site 401053010878 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 401053010879 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 401053010880 dimer interface [polypeptide binding]; other site 401053010881 phosphorylation site [posttranslational modification] 401053010882 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 401053010883 ATP binding site [chemical binding]; other site 401053010884 Mg2+ binding site [ion binding]; other site 401053010885 G-X-G motif; other site 401053010886 Chain length determinant protein; Region: Wzz; cl15801 401053010887 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 401053010888 Chain length determinant protein; Region: Wzz; cl15801 401053010889 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 401053010890 active site 401053010891 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 401053010892 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 401053010893 NADP-binding site; other site 401053010894 homotetramer interface [polypeptide binding]; other site 401053010895 substrate binding site [chemical binding]; other site 401053010896 homodimer interface [polypeptide binding]; other site 401053010897 active site 401053010898 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 401053010899 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053010900 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 401053010901 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 401053010902 active site 401053010903 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 401053010904 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 401053010905 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 401053010906 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 401053010907 MatE; Region: MatE; cl10513 401053010908 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 401053010909 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 401053010910 trmE is a tRNA modification GTPase; Region: trmE; cd04164 401053010911 G1 box; other site 401053010912 GTP/Mg2+ binding site [chemical binding]; other site 401053010913 Switch I region; other site 401053010914 G2 box; other site 401053010915 Switch II region; other site 401053010916 G3 box; other site 401053010917 G4 box; other site 401053010918 G5 box; other site 401053010919 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 401053010920 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 401053010921 G-X-X-G motif; other site 401053010922 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 401053010923 RxxxH motif; other site 401053010924 membrane protein insertase; Provisional; Region: PRK01318 401053010925 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 401053010926 Haemolytic domain; Region: Haemolytic; cl00506 401053010927 Ribonuclease P; Region: Ribonuclease_P; cl00457 401053010928 Ribosomal protein L34; Region: Ribosomal_L34; cl00370