-- dump date 20120504_140040 -- class Genbank::misc_feature -- table misc_feature_note -- id note 357348000001 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 357348000002 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 357348000003 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 357348000004 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 357348000005 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348000006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348000007 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 357348000008 IHF dimer interface [polypeptide binding]; other site 357348000009 IHF - DNA interface [nucleotide binding]; other site 357348000010 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 357348000011 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000012 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 357348000013 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 357348000014 N-acetyl-D-glucosamine binding site [chemical binding]; other site 357348000015 catalytic residue [active] 357348000016 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 357348000017 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348000018 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348000019 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348000020 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 357348000021 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 357348000022 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 357348000023 type II secretion system protein E; Region: type_II_gspE; TIGR02533 357348000024 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 357348000025 Walker A motif; other site 357348000026 ATP binding site [chemical binding]; other site 357348000027 Walker B motif; other site 357348000028 type II secretion system protein F; Region: GspF; TIGR02120 357348000029 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348000030 Ceramidase; Region: Ceramidase; pfam05875 357348000031 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348000032 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 357348000033 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 357348000034 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 357348000035 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 357348000036 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 357348000037 Type II transport protein GspH; Region: GspH; pfam12019 357348000038 type II secretion system protein I; Region: gspI; TIGR01707 357348000039 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 357348000040 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 357348000041 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 357348000042 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 357348000043 GspL periplasmic domain; Region: GspL_C; cl14909 357348000044 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 357348000045 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 357348000046 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 357348000047 Helix-turn-helix domains; Region: HTH; cl00088 357348000048 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 357348000049 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348000050 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 357348000051 putative substrate translocation pore; other site 357348000052 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 357348000053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348000054 Helix-turn-helix domains; Region: HTH; cl00088 357348000055 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 357348000056 putative dimerization interface [polypeptide binding]; other site 357348000057 LrgA family; Region: LrgA; cl00608 357348000058 LrgB-like family; Region: LrgB; cl00596 357348000059 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 357348000060 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 357348000061 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 357348000062 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 357348000063 flagellar motor switch protein; Validated; Region: fliN; PRK05698 357348000064 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 357348000065 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 357348000066 FliP family; Region: FliP; cl00593 357348000067 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 357348000068 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 357348000069 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 357348000070 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 357348000071 DNA binding residues [nucleotide binding] 357348000072 putative dimer interface [polypeptide binding]; other site 357348000073 putative metal binding residues [ion binding]; other site 357348000074 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 357348000075 S-adenosylmethionine binding site [chemical binding]; other site 357348000076 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 357348000077 NMT1-like family; Region: NMT1_2; cl15260 357348000078 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 357348000079 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 357348000080 Walker A/P-loop; other site 357348000081 ATP binding site [chemical binding]; other site 357348000082 Q-loop/lid; other site 357348000083 ABC transporter signature motif; other site 357348000084 Walker B; other site 357348000085 D-loop; other site 357348000086 H-loop/switch region; other site 357348000087 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 357348000088 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 357348000089 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 357348000090 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 357348000091 dimer interface [polypeptide binding]; other site 357348000092 phosphorylation site [posttranslational modification] 357348000093 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 357348000094 ATP binding site [chemical binding]; other site 357348000095 Mg2+ binding site [ion binding]; other site 357348000096 G-X-G motif; other site 357348000097 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 357348000098 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 357348000099 active site 357348000100 phosphorylation site [posttranslational modification] 357348000101 intermolecular recognition site; other site 357348000102 dimerization interface [polypeptide binding]; other site 357348000103 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 357348000104 DNA binding site [nucleotide binding] 357348000105 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348000106 trimer interface [polypeptide binding]; other site 357348000107 eyelet of channel; other site 357348000108 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348000109 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348000110 Restriction endonuclease [Defense mechanisms]; Region: COG3587 357348000111 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000112 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348000113 trimer interface [polypeptide binding]; other site 357348000114 eyelet of channel; other site 357348000115 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 357348000116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348000117 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 357348000118 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 357348000119 Walker A/P-loop; other site 357348000120 ATP binding site [chemical binding]; other site 357348000121 Q-loop/lid; other site 357348000122 ABC transporter signature motif; other site 357348000123 Walker B; other site 357348000124 D-loop; other site 357348000125 H-loop/switch region; other site 357348000126 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 357348000127 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000128 Walker A/P-loop; other site 357348000129 ATP binding site [chemical binding]; other site 357348000130 Q-loop/lid; other site 357348000131 ABC transporter signature motif; other site 357348000132 Walker B; other site 357348000133 D-loop; other site 357348000134 H-loop/switch region; other site 357348000135 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 357348000136 TM-ABC transporter signature motif; other site 357348000137 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 357348000138 TM-ABC transporter signature motif; other site 357348000139 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 357348000140 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 357348000141 putative ligand binding site [chemical binding]; other site 357348000142 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 357348000143 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348000144 NAD(P) binding site [chemical binding]; other site 357348000145 catalytic residues [active] 357348000146 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 357348000147 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 357348000148 classical (c) SDRs; Region: SDR_c; cd05233 357348000149 NAD(P) binding site [chemical binding]; other site 357348000150 active site 357348000151 choline dehydrogenase; Validated; Region: PRK02106 357348000152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348000153 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 357348000154 Helix-turn-helix domains; Region: HTH; cl00088 357348000155 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 357348000156 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 357348000157 Fatty acid desaturase; Region: FA_desaturase; pfam00487 357348000158 putative di-iron ligands [ion binding]; other site 357348000159 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 357348000160 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 357348000161 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 357348000162 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 357348000163 conserved cys residue [active] 357348000164 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348000165 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348000166 active site 357348000167 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 357348000168 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 357348000169 dimer interface [polypeptide binding]; other site 357348000170 active site 357348000171 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 357348000172 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348000173 substrate binding site [chemical binding]; other site 357348000174 oxyanion hole (OAH) forming residues; other site 357348000175 trimer interface [polypeptide binding]; other site 357348000176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348000177 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 357348000178 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 357348000179 CoA-transferase family III; Region: CoA_transf_3; pfam02515 357348000180 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 357348000181 NlpC/P60 family; Region: NLPC_P60; cl11438 357348000182 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 357348000183 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348000184 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 357348000185 DNA binding residues [nucleotide binding] 357348000186 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 357348000187 putative heme binding pocket [chemical binding]; other site 357348000188 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 357348000189 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 357348000190 GIY-YIG motif/motif A; other site 357348000191 putative active site [active] 357348000192 putative metal binding site [ion binding]; other site 357348000193 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 357348000194 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 357348000195 DNA-binding interface [nucleotide binding]; DNA binding site 357348000196 Helix-turn-helix domains; Region: HTH; cl00088 357348000197 Helix-turn-helix domains; Region: HTH; cl00088 357348000198 HTH-like domain; Region: HTH_21; pfam13276 357348000199 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 357348000200 Integrase core domain; Region: rve; cl01316 357348000201 Integrase core domain; Region: rve_3; cl15866 357348000202 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 357348000203 active site 357348000204 NTP binding site [chemical binding]; other site 357348000205 metal binding triad [ion binding]; metal-binding site 357348000206 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 357348000207 non-specific DNA binding site [nucleotide binding]; other site 357348000208 salt bridge; other site 357348000209 sequence-specific DNA binding site [nucleotide binding]; other site 357348000210 Domain of unknown function (DUF955); Region: DUF955; cl01076 357348000211 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 357348000212 HsdM N-terminal domain; Region: HsdM_N; pfam12161 357348000213 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348000214 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 357348000215 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 357348000216 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 357348000217 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 357348000218 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000219 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000220 Protein of unknown function DUF45; Region: DUF45; cl00636 357348000221 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 357348000222 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 357348000223 ATP binding site [chemical binding]; other site 357348000224 Mg2+ binding site [ion binding]; other site 357348000225 G-X-G motif; other site 357348000226 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 357348000227 anchoring element; other site 357348000228 dimer interface [polypeptide binding]; other site 357348000229 ATP binding site [chemical binding]; other site 357348000230 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 357348000231 active site 357348000232 putative metal-binding site [ion binding]; other site 357348000233 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 357348000234 DNA polymerase III subunit beta; Validated; Region: PRK05643 357348000235 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 357348000236 putative DNA binding surface [nucleotide binding]; other site 357348000237 dimer interface [polypeptide binding]; other site 357348000238 beta-clamp/clamp loader binding surface; other site 357348000239 beta-clamp/translesion DNA polymerase binding surface; other site 357348000240 DnaA N-terminal domain; Region: DnaA_N; pfam11638 357348000241 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 357348000242 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 357348000243 Walker A motif; other site 357348000244 ATP binding site [chemical binding]; other site 357348000245 Walker B motif; other site 357348000246 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000247 arginine finger; other site 357348000248 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 357348000249 DnaA box-binding interface [nucleotide binding]; other site 357348000250 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 357348000251 Ribonuclease P; Region: Ribonuclease_P; cl00457 357348000252 Haemolytic domain; Region: Haemolytic; cl00506 357348000253 membrane protein insertase; Provisional; Region: PRK01318 357348000254 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 357348000255 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 357348000256 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 357348000257 sequence-specific DNA binding site [nucleotide binding]; other site 357348000258 salt bridge; other site 357348000259 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 357348000260 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 357348000261 trmE is a tRNA modification GTPase; Region: trmE; cd04164 357348000262 G1 box; other site 357348000263 GTP/Mg2+ binding site [chemical binding]; other site 357348000264 Switch I region; other site 357348000265 G2 box; other site 357348000266 Switch II region; other site 357348000267 G3 box; other site 357348000268 G4 box; other site 357348000269 G5 box; other site 357348000270 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 357348000271 integrase; Provisional; Region: PRK09692 357348000272 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 357348000273 active site 357348000274 Int/Topo IB signature motif; other site 357348000275 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 357348000276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 357348000277 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 357348000278 active site 357348000279 metal binding site [ion binding]; metal-binding site 357348000280 interdomain interaction site; other site 357348000281 Domain of unknown function (DUF927); Region: DUF927; cl12098 357348000282 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 357348000283 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 357348000284 putative transposase OrfB; Reviewed; Region: PHA02517 357348000285 HTH-like domain; Region: HTH_21; pfam13276 357348000286 Integrase core domain; Region: rve; cl01316 357348000287 Integrase core domain; Region: rve_3; cl15866 357348000288 Helix-turn-helix domains; Region: HTH; cl00088 357348000289 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 357348000290 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 357348000291 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 357348000292 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348000293 YaeQ protein; Region: YaeQ; cl01913 357348000294 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 357348000295 dimer interface [polypeptide binding]; other site 357348000296 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348000297 metal binding site [ion binding]; metal-binding site 357348000298 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 357348000299 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 357348000300 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348000301 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348000302 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 357348000303 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 357348000304 DNA binding site [nucleotide binding] 357348000305 active site 357348000306 AlkA N-terminal domain; Region: AlkA_N; cl05528 357348000307 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 357348000308 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 357348000309 minor groove reading motif; other site 357348000310 helix-hairpin-helix signature motif; other site 357348000311 substrate binding pocket [chemical binding]; other site 357348000312 active site 357348000313 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 357348000314 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 357348000315 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348000316 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 357348000317 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 357348000318 DNA binding residues [nucleotide binding] 357348000319 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 357348000320 dimer interface [polypeptide binding]; other site 357348000321 transcriptional activator TtdR; Provisional; Region: PRK09801 357348000322 Helix-turn-helix domains; Region: HTH; cl00088 357348000323 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348000324 putative effector binding pocket; other site 357348000325 dimerization interface [polypeptide binding]; other site 357348000326 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 357348000327 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 357348000328 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 357348000329 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 357348000330 N-carbamolyputrescine amidase; Region: PLN02747 357348000331 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 357348000332 putative active site; other site 357348000333 catalytic triad [active] 357348000334 putative dimer interface [polypeptide binding]; other site 357348000335 Phage-related protein [Function unknown]; Region: COG4695; cl01923 357348000336 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 357348000337 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 357348000338 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 357348000339 CoenzymeA binding site [chemical binding]; other site 357348000340 subunit interaction site [polypeptide binding]; other site 357348000341 PHB binding site; other site 357348000342 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 357348000343 active site 357348000344 nucleophile elbow; other site 357348000345 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 357348000346 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 357348000347 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348000348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348000349 Helix-turn-helix domains; Region: HTH; cl00088 357348000350 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348000351 putative effector binding pocket; other site 357348000352 dimerization interface [polypeptide binding]; other site 357348000353 DNA topoisomerase III; Validated; Region: PRK08173 357348000354 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 357348000355 active site 357348000356 putative interdomain interaction site [polypeptide binding]; other site 357348000357 putative metal-binding site [ion binding]; other site 357348000358 putative nucleotide binding site [chemical binding]; other site 357348000359 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 357348000360 domain I; other site 357348000361 DNA binding groove [nucleotide binding] 357348000362 phosphate binding site [ion binding]; other site 357348000363 domain II; other site 357348000364 domain III; other site 357348000365 nucleotide binding site [chemical binding]; other site 357348000366 catalytic site [active] 357348000367 domain IV; other site 357348000368 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 357348000369 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 357348000370 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 357348000371 catalytic residues [active] 357348000372 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 357348000373 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 357348000374 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 357348000375 active site 357348000376 catalytic residues [active] 357348000377 metal binding site [ion binding]; metal-binding site 357348000378 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 357348000379 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 357348000380 putative active site [active] 357348000381 substrate binding site [chemical binding]; other site 357348000382 putative cosubstrate binding site; other site 357348000383 catalytic site [active] 357348000384 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 357348000385 substrate binding site [chemical binding]; other site 357348000386 LysE type translocator; Region: LysE; cl00565 357348000387 Peptidase family M48; Region: Peptidase_M48; cl12018 357348000388 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 357348000389 16S rRNA methyltransferase B; Provisional; Region: PRK10901 357348000390 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 357348000391 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 357348000392 S-adenosylmethionine binding site [chemical binding]; other site 357348000393 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 357348000394 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 357348000395 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 357348000396 dimerization interface [polypeptide binding]; other site 357348000397 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 357348000398 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 357348000399 dimer interface [polypeptide binding]; other site 357348000400 phosphorylation site [posttranslational modification] 357348000401 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 357348000402 ATP binding site [chemical binding]; other site 357348000403 Mg2+ binding site [ion binding]; other site 357348000404 G-X-G motif; other site 357348000405 Response regulator receiver domain; Region: Response_reg; pfam00072 357348000406 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 357348000407 active site 357348000408 phosphorylation site [posttranslational modification] 357348000409 intermolecular recognition site; other site 357348000410 dimerization interface [polypeptide binding]; other site 357348000411 Helix-turn-helix domains; Region: HTH; cl00088 357348000412 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 357348000413 Ligand Binding Site [chemical binding]; other site 357348000414 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 357348000415 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 357348000416 FeS/SAM binding site; other site 357348000417 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 357348000418 active site 357348000419 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 357348000420 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 357348000421 Sel1 repeat; Region: Sel1; cl02723 357348000422 Sel1 repeat; Region: Sel1; cl02723 357348000423 Sel1 repeat; Region: Sel1; cl02723 357348000424 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 357348000425 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 357348000426 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 357348000427 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348000428 rod shape-determining protein MreD; Region: MreD; cl01087 357348000429 rod shape-determining protein MreC; Provisional; Region: PRK13922 357348000430 rod shape-determining protein MreC; Region: MreC; pfam04085 357348000431 rod shape-determining protein MreB; Provisional; Region: PRK13927 357348000432 Cell division protein FtsA; Region: FtsA; cl11496 357348000433 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 357348000434 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 357348000435 Amidase; Region: Amidase; cl11426 357348000436 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 357348000437 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 357348000438 GatB domain; Region: GatB_Yqey; cl11497 357348000439 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 357348000440 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 357348000441 putative active site [active] 357348000442 putative catalytic site [active] 357348000443 putative DNA binding site [nucleotide binding]; other site 357348000444 putative phosphate binding site [ion binding]; other site 357348000445 metal binding site A [ion binding]; metal-binding site 357348000446 putative AP binding site [nucleotide binding]; other site 357348000447 putative metal binding site B [ion binding]; other site 357348000448 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 357348000449 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 357348000450 putative NAD(P) binding site [chemical binding]; other site 357348000451 putative substrate binding site [chemical binding]; other site 357348000452 catalytic Zn binding site [ion binding]; other site 357348000453 structural Zn binding site [ion binding]; other site 357348000454 dimer interface [polypeptide binding]; other site 357348000455 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 357348000456 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 357348000457 Peptidase family M48; Region: Peptidase_M48; cl12018 357348000458 muropeptide transporter; Reviewed; Region: ampG; PRK11902 357348000459 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 357348000460 putative substrate translocation pore; other site 357348000461 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348000462 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 357348000463 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 357348000464 division inhibitor protein; Provisional; Region: slmA; PRK09480 357348000465 Helix-turn-helix domains; Region: HTH; cl00088 357348000466 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348000467 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 357348000468 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 357348000469 feedback inhibition sensing region; other site 357348000470 homohexameric interface [polypeptide binding]; other site 357348000471 nucleotide binding site [chemical binding]; other site 357348000472 N-acetyl-L-glutamate binding site [chemical binding]; other site 357348000473 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 357348000474 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 357348000475 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 357348000476 dimer interface [polypeptide binding]; other site 357348000477 phosphorylation site [posttranslational modification] 357348000478 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 357348000479 ATP binding site [chemical binding]; other site 357348000480 Mg2+ binding site [ion binding]; other site 357348000481 G-X-G motif; other site 357348000482 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 357348000483 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 357348000484 active site 357348000485 phosphorylation site [posttranslational modification] 357348000486 intermolecular recognition site; other site 357348000487 dimerization interface [polypeptide binding]; other site 357348000488 Helix-turn-helix domains; Region: HTH; cl00088 357348000489 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 357348000490 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 357348000491 Walker A motif; other site 357348000492 ATP binding site [chemical binding]; other site 357348000493 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000494 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 357348000495 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 357348000496 active site 357348000497 HslU subunit interaction site [polypeptide binding]; other site 357348000498 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 357348000499 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 357348000500 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 357348000501 P-loop, Walker A motif; other site 357348000502 Base recognition motif; other site 357348000503 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 357348000504 PUA domain; Region: PUA; cl00607 357348000505 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 357348000506 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 357348000507 putative RNA binding site [nucleotide binding]; other site 357348000508 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 357348000509 S-adenosylmethionine binding site [chemical binding]; other site 357348000510 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 357348000511 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 357348000512 active site 357348000513 DNA binding site [nucleotide binding] 357348000514 Int/Topo IB signature motif; other site 357348000515 GAF domain; Region: GAF; cl15785 357348000516 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 357348000517 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 357348000518 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 357348000519 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 357348000520 putative acyl-acceptor binding pocket; other site 357348000521 S-adenosylmethionine synthetase; Validated; Region: PRK05250 357348000522 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 357348000523 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 357348000524 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 357348000525 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 357348000526 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 357348000527 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 357348000528 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 357348000529 active site 357348000530 catalytic tetrad [active] 357348000531 EamA-like transporter family; Region: EamA; cl01037 357348000532 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 357348000533 putative substrate translocation pore; other site 357348000534 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348000535 Phosphotransferase enzyme family; Region: APH; pfam01636 357348000536 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 357348000537 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 357348000538 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 357348000539 NAD(P) binding site [chemical binding]; other site 357348000540 catalytic residues [active] 357348000541 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 357348000542 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348000543 active site 357348000544 choline dehydrogenase; Validated; Region: PRK02106 357348000545 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 357348000546 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 357348000547 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 357348000548 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 357348000549 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 357348000550 Walker A motif/ATP binding site; other site 357348000551 Walker B motif; other site 357348000552 flagellar assembly protein H; Validated; Region: fliH; PRK05687 357348000553 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 357348000554 Flagellar assembly protein FliH; Region: FliH; pfam02108 357348000555 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 357348000556 FliG C-terminal domain; Region: FliG_C; pfam01706 357348000557 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 357348000558 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 357348000559 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 357348000560 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 357348000561 Flagellar protein FliS; Region: FliS; cl00654 357348000562 Flagellar protein FliT; Region: FliT; cl05125 357348000563 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 357348000564 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 357348000565 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 357348000566 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 357348000567 XdhC Rossmann domain; Region: XdhC_C; pfam13478 357348000568 amino acid transporter; Region: 2A0306; TIGR00909 357348000569 Spore germination protein; Region: Spore_permease; cl15802 357348000570 Spore germination protein; Region: Spore_permease; cl15802 357348000571 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348000572 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 357348000573 active site 357348000574 phosphorylation site [posttranslational modification] 357348000575 intermolecular recognition site; other site 357348000576 dimerization interface [polypeptide binding]; other site 357348000577 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 357348000578 DNA binding residues [nucleotide binding] 357348000579 dimerization interface [polypeptide binding]; other site 357348000580 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 357348000581 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 357348000582 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 357348000583 FAD binding pocket [chemical binding]; other site 357348000584 FAD binding motif [chemical binding]; other site 357348000585 phosphate binding motif [ion binding]; other site 357348000586 beta-alpha-beta structure motif; other site 357348000587 NAD binding pocket [chemical binding]; other site 357348000588 LysE type translocator; Region: LysE; cl00565 357348000589 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 357348000590 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 357348000591 Walker A motif; other site 357348000592 ATP binding site [chemical binding]; other site 357348000593 Walker B motif; other site 357348000594 arginine finger; other site 357348000595 Predicted dehydrogenase [General function prediction only]; Region: COG0579 357348000596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348000597 High potential iron-sulfur protein; Region: HIPIP; pfam01355 357348000598 citrate-proton symporter; Provisional; Region: PRK15075 357348000599 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 357348000600 putative substrate translocation pore; other site 357348000601 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 357348000602 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 357348000603 peptide binding site [polypeptide binding]; other site 357348000604 dipeptide transporter permease DppB; Provisional; Region: PRK10914 357348000605 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 357348000606 dimer interface [polypeptide binding]; other site 357348000607 conserved gate region; other site 357348000608 putative PBP binding loops; other site 357348000609 ABC-ATPase subunit interface; other site 357348000610 dipeptide transporter; Provisional; Region: PRK10913 357348000611 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 357348000612 dimer interface [polypeptide binding]; other site 357348000613 conserved gate region; other site 357348000614 putative PBP binding loops; other site 357348000615 ABC-ATPase subunit interface; other site 357348000616 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 357348000617 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 357348000618 Walker A/P-loop; other site 357348000619 ATP binding site [chemical binding]; other site 357348000620 Q-loop/lid; other site 357348000621 ABC transporter signature motif; other site 357348000622 Walker B; other site 357348000623 D-loop; other site 357348000624 H-loop/switch region; other site 357348000625 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 357348000626 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 357348000627 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 357348000628 Walker A/P-loop; other site 357348000629 ATP binding site [chemical binding]; other site 357348000630 Q-loop/lid; other site 357348000631 ABC transporter signature motif; other site 357348000632 Walker B; other site 357348000633 D-loop; other site 357348000634 H-loop/switch region; other site 357348000635 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 357348000636 TraB family; Region: TraB; cl12050 357348000637 Protein of unknown function (DUF979); Region: DUF979; cl01572 357348000638 Protein of unknown function (DUF969); Region: DUF969; cl01573 357348000639 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 357348000640 putative active site [active] 357348000641 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 357348000642 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 357348000643 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 357348000644 Helix-turn-helix domains; Region: HTH; cl00088 357348000645 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 357348000646 lytic murein transglycosylase; Provisional; Region: PRK11619 357348000647 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 357348000648 N-acetyl-D-glucosamine binding site [chemical binding]; other site 357348000649 catalytic residue [active] 357348000650 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 357348000651 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 357348000652 putative NAD(P) binding site [chemical binding]; other site 357348000653 active site 357348000654 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 357348000655 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 357348000656 putative C-terminal domain interface [polypeptide binding]; other site 357348000657 putative GSH binding site (G-site) [chemical binding]; other site 357348000658 putative dimer interface [polypeptide binding]; other site 357348000659 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 357348000660 putative N-terminal domain interface [polypeptide binding]; other site 357348000661 putative dimer interface [polypeptide binding]; other site 357348000662 putative substrate binding pocket (H-site) [chemical binding]; other site 357348000663 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 357348000664 active site 357348000665 NTP binding site [chemical binding]; other site 357348000666 metal binding triad [ion binding]; metal-binding site 357348000667 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 357348000668 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 357348000669 Killing trait; Region: RebB; pfam11747 357348000670 FlgN protein; Region: FlgN; cl09176 357348000671 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 357348000672 SAF-like; Region: SAF_2; pfam13144 357348000673 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 357348000674 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 357348000675 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 357348000676 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 357348000677 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 357348000678 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 357348000679 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 357348000680 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 357348000681 FlgD Ig-like domain; Region: FlgD_ig; cl15790 357348000682 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 357348000683 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 357348000684 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 357348000685 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 357348000686 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 357348000687 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 357348000688 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 357348000689 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 357348000690 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 357348000691 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 357348000692 Flagellar L-ring protein; Region: FlgH; cl00905 357348000693 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 357348000694 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 357348000695 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 357348000696 Rod binding protein; Region: Rod-binding; cl01626 357348000697 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 357348000698 Flagellar regulator YcgR; Region: YcgR; pfam07317 357348000699 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 357348000700 PilZ domain; Region: PilZ; cl01260 357348000701 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 357348000702 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 357348000703 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 357348000704 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 357348000705 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 357348000706 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 357348000707 Helix-turn-helix domains; Region: HTH; cl00088 357348000708 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 357348000709 dimerization interface [polypeptide binding]; other site 357348000710 substrate binding pocket [chemical binding]; other site 357348000711 Chromate transporter; Region: Chromate_transp; pfam02417 357348000712 Chromate transporter; Region: Chromate_transp; pfam02417 357348000713 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 357348000714 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 357348000715 PhnA protein; Region: PhnA; pfam03831 357348000716 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 357348000717 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348000718 trimer interface [polypeptide binding]; other site 357348000719 eyelet of channel; other site 357348000720 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 357348000721 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 357348000722 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 357348000723 ligand binding site; other site 357348000724 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 357348000725 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 357348000726 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 357348000727 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 357348000728 glutathione reductase; Validated; Region: PRK06116 357348000729 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348000730 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 357348000731 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 357348000732 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 357348000733 Ligand Binding Site [chemical binding]; other site 357348000734 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 357348000735 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 357348000736 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 357348000737 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 357348000738 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348000739 LemA family; Region: LemA; cl00742 357348000740 Repair protein; Region: Repair_PSII; cl01535 357348000741 Repair protein; Region: Repair_PSII; cl01535 357348000742 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 357348000743 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 357348000744 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 357348000745 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 357348000746 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 357348000747 Avidin family; Region: Avidin; pfam01382 357348000748 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 357348000749 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 357348000750 glutaminase active site [active] 357348000751 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 357348000752 dimer interface [polypeptide binding]; other site 357348000753 active site 357348000754 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 357348000755 dimer interface [polypeptide binding]; other site 357348000756 active site 357348000757 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 357348000758 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 357348000759 Substrate binding site; other site 357348000760 Mg++ binding site; other site 357348000761 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 357348000762 active site 357348000763 substrate binding site [chemical binding]; other site 357348000764 CoA binding site [chemical binding]; other site 357348000765 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 357348000766 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 357348000767 Ligand Binding Site [chemical binding]; other site 357348000768 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 357348000769 active site 357348000770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348000771 Uncharacterized conserved protein [Function unknown]; Region: COG1565 357348000772 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 357348000773 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 357348000774 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 357348000775 putative substrate binding site [chemical binding]; other site 357348000776 putative ATP binding site [chemical binding]; other site 357348000777 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 357348000778 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 357348000779 dimerization interface [polypeptide binding]; other site 357348000780 putative active cleft [active] 357348000781 Transcriptional regulators [Transcription]; Region: PurR; COG1609 357348000782 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 357348000783 DNA binding site [nucleotide binding] 357348000784 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 357348000785 ligand binding site [chemical binding]; other site 357348000786 dimerization interface [polypeptide binding]; other site 357348000787 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 357348000788 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348000789 dimer interface [polypeptide binding]; other site 357348000790 putative CheW interface [polypeptide binding]; other site 357348000791 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 357348000792 Membrane transport protein; Region: Mem_trans; cl09117 357348000793 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348000794 trimer interface [polypeptide binding]; other site 357348000795 eyelet of channel; other site 357348000796 Helix-turn-helix domains; Region: HTH; cl00088 357348000797 LysR family transcriptional regulator; Provisional; Region: PRK14997 357348000798 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348000799 putative effector binding pocket; other site 357348000800 dimerization interface [polypeptide binding]; other site 357348000801 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 357348000802 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 357348000803 FMN binding site [chemical binding]; other site 357348000804 substrate binding site [chemical binding]; other site 357348000805 putative catalytic residue [active] 357348000806 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348000807 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348000808 Helix-turn-helix domains; Region: HTH; cl00088 357348000809 AsnC family; Region: AsnC_trans_reg; pfam01037 357348000810 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 357348000811 EamA-like transporter family; Region: EamA; cl01037 357348000812 EamA-like transporter family; Region: EamA; cl01037 357348000813 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 357348000814 Transposase; Region: DDE_Tnp_ISL3; pfam01610 357348000815 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 357348000816 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 357348000817 putative deacylase active site [active] 357348000818 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 357348000819 active site 357348000820 catalytic residues [active] 357348000821 metal binding site [ion binding]; metal-binding site 357348000822 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 357348000823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348000824 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 357348000825 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348000826 putative metal binding site [ion binding]; other site 357348000827 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 357348000828 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_20; cd04679 357348000829 nudix motif; other site 357348000830 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 357348000831 Phosphoesterase family; Region: Phosphoesterase; cl15450 357348000832 Domain of unknown function (DUF756); Region: DUF756; pfam05506 357348000833 Domain of unknown function (DUF756); Region: DUF756; pfam05506 357348000834 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348000835 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 357348000836 putative DNA binding site [nucleotide binding]; other site 357348000837 putative Zn2+ binding site [ion binding]; other site 357348000838 AsnC family; Region: AsnC_trans_reg; pfam01037 357348000839 AzlC protein; Region: AzlC; cl00570 357348000840 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 357348000841 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348000842 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 357348000843 Cu(I) binding site [ion binding]; other site 357348000844 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 357348000845 Galactose oxidase, central domain; Region: Kelch_3; cl02701 357348000846 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 357348000847 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 357348000848 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 357348000849 dimer interface [polypeptide binding]; other site 357348000850 active site 357348000851 catalytic residue [active] 357348000852 Inclusion body protein; Region: PixA; pfam12306 357348000853 Inclusion body protein; Region: PixA; pfam12306 357348000854 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 357348000855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000856 Helix-turn-helix domains; Region: HTH; cl00088 357348000857 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 357348000858 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 357348000859 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 357348000860 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 357348000861 Ion channel; Region: Ion_trans_2; cl11596 357348000862 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 357348000863 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 357348000864 dimer interface [polypeptide binding]; other site 357348000865 PYR/PP interface [polypeptide binding]; other site 357348000866 TPP binding site [chemical binding]; other site 357348000867 substrate binding site [chemical binding]; other site 357348000868 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 357348000869 TPP-binding site; other site 357348000870 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 357348000871 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 357348000872 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 357348000873 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 357348000874 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 357348000875 dimer interface [polypeptide binding]; other site 357348000876 active site 357348000877 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 357348000878 Alkaline phosphatase homologues; Region: alkPPc; smart00098 357348000879 active site 357348000880 dimer interface [polypeptide binding]; other site 357348000881 CutC family; Region: CutC; cl01218 357348000882 biotin synthase; Region: bioB; TIGR00433 357348000883 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 357348000884 FeS/SAM binding site; other site 357348000885 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 357348000886 AAA domain; Region: AAA_26; pfam13500 357348000887 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000889 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 357348000890 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 357348000891 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348000892 catalytic residue [active] 357348000893 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 357348000894 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 357348000895 inhibitor-cofactor binding pocket; inhibition site 357348000896 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348000897 catalytic residue [active] 357348000898 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 357348000899 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 357348000900 hypothetical protein; Provisional; Region: PRK01842 357348000901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348000902 NAD(P) binding site [chemical binding]; other site 357348000903 active site 357348000904 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 357348000905 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 357348000906 dimer interface [polypeptide binding]; other site 357348000907 active site 357348000908 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 357348000909 active site clefts [active] 357348000910 zinc binding site [ion binding]; other site 357348000911 dimer interface [polypeptide binding]; other site 357348000912 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 357348000913 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 357348000914 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348000915 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 357348000916 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348000917 Walker A/P-loop; other site 357348000918 ATP binding site [chemical binding]; other site 357348000919 Q-loop/lid; other site 357348000920 ABC transporter signature motif; other site 357348000921 Walker B; other site 357348000922 D-loop; other site 357348000923 H-loop/switch region; other site 357348000924 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 357348000925 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 357348000926 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 357348000927 peptide binding site [polypeptide binding]; other site 357348000928 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 357348000929 active site 357348000930 Helix-turn-helix domains; Region: HTH; cl00088 357348000931 Transcriptional regulators [Transcription]; Region: MarR; COG1846 357348000932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348000933 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 357348000934 NAD(P) binding site [chemical binding]; other site 357348000935 active site 357348000936 short chain dehydrogenase; Provisional; Region: PRK08251 357348000937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348000938 NAD(P) binding site [chemical binding]; other site 357348000939 active site 357348000940 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 357348000941 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 357348000942 catalytic residues [active] 357348000943 hinge region; other site 357348000944 alpha helical domain; other site 357348000945 Sporulation related domain; Region: SPOR; cl10051 357348000946 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 357348000947 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 357348000948 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 357348000949 active site 357348000950 HIGH motif; other site 357348000951 KMSK motif region; other site 357348000952 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 357348000953 tRNA binding surface [nucleotide binding]; other site 357348000954 anticodon binding site; other site 357348000955 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 357348000956 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 357348000957 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 357348000958 substrate binding pocket [chemical binding]; other site 357348000959 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 357348000960 B12 binding site [chemical binding]; other site 357348000961 cobalt ligand [ion binding]; other site 357348000962 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 357348000963 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 357348000964 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 357348000965 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 357348000966 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 357348000967 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348000968 Helix-turn-helix domains; Region: HTH; cl00088 357348000969 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348000970 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 357348000971 enoyl-CoA hydratase; Provisional; Region: PRK07657 357348000972 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348000973 substrate binding site [chemical binding]; other site 357348000974 oxyanion hole (OAH) forming residues; other site 357348000975 trimer interface [polypeptide binding]; other site 357348000976 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 357348000977 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 357348000978 active site 357348000979 nucleophile elbow; other site 357348000980 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 357348000981 dinuclear metal binding motif [ion binding]; other site 357348000982 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348000983 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 357348000984 active site 357348000985 HIGH motif; other site 357348000986 nucleotide binding site [chemical binding]; other site 357348000987 Type III pantothenate kinase; Region: Pan_kinase; cl09130 357348000988 biotin--protein ligase; Provisional; Region: PRK06955 357348000989 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 357348000990 Sel1 repeat; Region: Sel1; cl02723 357348000991 Sel1 repeat; Region: Sel1; cl02723 357348000992 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 357348000993 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 357348000994 active site 357348000995 metal binding site [ion binding]; metal-binding site 357348000996 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 357348000997 Permease; Region: Permease; cl00510 357348000998 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 357348000999 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 357348001000 Walker A/P-loop; other site 357348001001 ATP binding site [chemical binding]; other site 357348001002 Q-loop/lid; other site 357348001003 ABC transporter signature motif; other site 357348001004 Walker B; other site 357348001005 D-loop; other site 357348001006 H-loop/switch region; other site 357348001007 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 357348001008 mce related protein; Region: MCE; pfam02470 357348001009 Protein of unknown function (DUF330); Region: DUF330; cl01135 357348001010 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 357348001011 dimer interface [polypeptide binding]; other site 357348001012 [2Fe-2S] cluster binding site [ion binding]; other site 357348001013 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 357348001014 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 357348001015 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348001016 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 357348001017 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 357348001018 homodimer interface [polypeptide binding]; other site 357348001019 substrate-cofactor binding pocket; other site 357348001020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348001021 catalytic residue [active] 357348001022 Protein of unknown function (DUF493); Region: DUF493; cl01102 357348001023 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 357348001024 Helix-turn-helix domains; Region: HTH; cl00088 357348001025 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 357348001026 dimerization interface [polypeptide binding]; other site 357348001027 substrate binding pocket [chemical binding]; other site 357348001028 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 357348001029 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 357348001030 lipoyl synthase; Provisional; Region: PRK05481 357348001031 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 357348001032 FeS/SAM binding site; other site 357348001033 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 357348001034 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 357348001035 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 357348001036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348001037 Helix-turn-helix domains; Region: HTH; cl00088 357348001038 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348001039 putative effector binding pocket; other site 357348001040 dimerization interface [polypeptide binding]; other site 357348001041 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 357348001042 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348001043 substrate binding site [chemical binding]; other site 357348001044 oxyanion hole (OAH) forming residues; other site 357348001045 trimer interface [polypeptide binding]; other site 357348001046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348001047 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 357348001048 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 357348001049 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 357348001050 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348001051 active site 357348001052 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 357348001053 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 357348001054 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 357348001055 active site 357348001056 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 357348001057 CoA-transferase family III; Region: CoA_transf_3; pfam02515 357348001058 Protein of unknown function, DUF485; Region: DUF485; cl01231 357348001059 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 357348001060 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 357348001061 Na binding site [ion binding]; other site 357348001062 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 357348001063 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 357348001064 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 357348001065 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 357348001066 dimer interface [polypeptide binding]; other site 357348001067 phosphorylation site [posttranslational modification] 357348001068 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 357348001069 ATP binding site [chemical binding]; other site 357348001070 Mg2+ binding site [ion binding]; other site 357348001071 G-X-G motif; other site 357348001072 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 357348001073 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 357348001074 active site 357348001075 phosphorylation site [posttranslational modification] 357348001076 intermolecular recognition site; other site 357348001077 dimerization interface [polypeptide binding]; other site 357348001078 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 357348001079 Walker A motif; other site 357348001080 ATP binding site [chemical binding]; other site 357348001081 Walker B motif; other site 357348001082 arginine finger; other site 357348001083 Helix-turn-helix domains; Region: HTH; cl00088 357348001084 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 357348001085 catalytic residues [active] 357348001086 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 357348001087 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 357348001088 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348001089 Mg chelatase-related protein; Region: TIGR00368 357348001090 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 357348001091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348001092 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 357348001093 Membrane fusogenic activity; Region: BMFP; cl01115 357348001094 Nitrogen regulatory protein P-II; Region: P-II; cl00412 357348001095 Nitrogen regulatory protein P-II; Region: P-II; smart00938 357348001096 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 357348001097 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 357348001098 Glutamate-cysteine ligase; Region: GshA; pfam08886 357348001099 glutathione synthetase; Provisional; Region: PRK05246 357348001100 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 357348001101 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348001102 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 357348001103 active pocket/dimerization site; other site 357348001104 active site 357348001105 phosphorylation site [posttranslational modification] 357348001106 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 357348001107 dimerization domain swap beta strand [polypeptide binding]; other site 357348001108 regulatory protein interface [polypeptide binding]; other site 357348001109 active site 357348001110 regulatory phosphorylation site [posttranslational modification]; other site 357348001111 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 357348001112 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 357348001113 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 357348001114 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 357348001115 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 357348001116 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 357348001117 ATP binding site [chemical binding]; other site 357348001118 substrate interface [chemical binding]; other site 357348001119 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 357348001120 C-terminal peptidase (prc); Region: prc; TIGR00225 357348001121 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 357348001122 protein binding site [polypeptide binding]; other site 357348001123 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 357348001124 Catalytic dyad [active] 357348001125 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 357348001126 catalytic core [active] 357348001127 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 357348001128 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 357348001129 active site residue [active] 357348001130 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 357348001131 GSH binding site [chemical binding]; other site 357348001132 catalytic residues [active] 357348001133 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 357348001134 SecA binding site; other site 357348001135 Preprotein binding site; other site 357348001136 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 357348001137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348001138 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 357348001139 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 357348001140 putative ADP-ribose binding site [chemical binding]; other site 357348001141 putative active site [active] 357348001142 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 357348001143 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 357348001144 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 357348001145 active site 357348001146 hypothetical protein; Provisional; Region: PRK08317 357348001147 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 357348001148 S-adenosylmethionine binding site [chemical binding]; other site 357348001149 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 357348001150 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 357348001151 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 357348001152 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348001153 Cytochrome c; Region: Cytochrom_C; cl11414 357348001154 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348001155 ligand binding site [chemical binding]; other site 357348001156 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 357348001157 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 357348001158 Subunit I/III interface [polypeptide binding]; other site 357348001159 D-pathway; other site 357348001160 Subunit I/VIIc interface [polypeptide binding]; other site 357348001161 Subunit I/IV interface [polypeptide binding]; other site 357348001162 Subunit I/II interface [polypeptide binding]; other site 357348001163 Low-spin heme (heme a) binding site [chemical binding]; other site 357348001164 Subunit I/VIIa interface [polypeptide binding]; other site 357348001165 Subunit I/VIa interface [polypeptide binding]; other site 357348001166 Dimer interface; other site 357348001167 Putative water exit pathway; other site 357348001168 Binuclear center (heme a3/CuB) [ion binding]; other site 357348001169 K-pathway; other site 357348001170 Subunit I/Vb interface [polypeptide binding]; other site 357348001171 Putative proton exit pathway; other site 357348001172 Subunit I/VIb interface; other site 357348001173 Subunit I/VIc interface [polypeptide binding]; other site 357348001174 Electron transfer pathway; other site 357348001175 Subunit I/VIIIb interface [polypeptide binding]; other site 357348001176 Subunit I/VIIb interface [polypeptide binding]; other site 357348001177 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 357348001178 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 357348001179 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 357348001180 Subunit III/VIIa interface [polypeptide binding]; other site 357348001181 Phospholipid binding site [chemical binding]; other site 357348001182 Subunit I/III interface [polypeptide binding]; other site 357348001183 Subunit III/VIb interface [polypeptide binding]; other site 357348001184 Subunit III/VIa interface; other site 357348001185 Subunit III/Vb interface [polypeptide binding]; other site 357348001186 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 357348001187 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 357348001188 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 357348001189 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 357348001190 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 357348001191 UbiA prenyltransferase family; Region: UbiA; cl00337 357348001192 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 357348001193 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 357348001194 Cu(I) binding site [ion binding]; other site 357348001195 YCII-related domain; Region: YCII; cl00999 357348001196 Cache domain; Region: Cache_2; cl07034 357348001197 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 357348001198 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 357348001199 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348001200 dimer interface [polypeptide binding]; other site 357348001201 putative CheW interface [polypeptide binding]; other site 357348001202 NMT1-like family; Region: NMT1_2; cl15260 357348001203 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 357348001204 zinc binding site [ion binding]; other site 357348001205 putative ligand binding site [chemical binding]; other site 357348001206 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 357348001207 TM-ABC transporter signature motif; other site 357348001208 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 357348001209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348001210 Walker A/P-loop; other site 357348001211 ATP binding site [chemical binding]; other site 357348001212 Q-loop/lid; other site 357348001213 ABC transporter signature motif; other site 357348001214 Walker B; other site 357348001215 D-loop; other site 357348001216 H-loop/switch region; other site 357348001217 DNA Polymerase Y-family; Region: PolY_like; cd03468 357348001218 active site 357348001219 DNA binding site [nucleotide binding] 357348001220 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 357348001221 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 357348001222 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 357348001223 generic binding surface II; other site 357348001224 generic binding surface I; other site 357348001225 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 357348001226 Fatty acid desaturase; Region: FA_desaturase; pfam00487 357348001227 putative di-iron ligands [ion binding]; other site 357348001228 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 357348001229 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 357348001230 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 357348001231 inhibitor-cofactor binding pocket; inhibition site 357348001232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348001233 catalytic residue [active] 357348001234 ABC-2 type transporter; Region: ABC2_membrane; cl11417 357348001235 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 357348001236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348001237 Walker A/P-loop; other site 357348001238 ATP binding site [chemical binding]; other site 357348001239 Q-loop/lid; other site 357348001240 ABC transporter signature motif; other site 357348001241 Walker B; other site 357348001242 D-loop; other site 357348001243 H-loop/switch region; other site 357348001244 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348001245 Methyltransferase domain; Region: Methyltransf_31; pfam13847 357348001246 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 357348001247 S-adenosylmethionine binding site [chemical binding]; other site 357348001248 Citrate synthase; Region: Citrate_synt; pfam00285 357348001249 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 357348001250 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 357348001251 citrylCoA binding site [chemical binding]; other site 357348001252 oxalacetate binding site [chemical binding]; other site 357348001253 coenzyme A binding site [chemical binding]; other site 357348001254 catalytic triad [active] 357348001255 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 357348001256 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348001257 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348001258 active site 357348001259 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 357348001260 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 357348001261 active site 357348001262 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 357348001263 AMP-binding enzyme; Region: AMP-binding; cl15778 357348001264 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 357348001265 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 357348001266 dimer interface [polypeptide binding]; other site 357348001267 active site 357348001268 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 357348001269 catalytic residues [active] 357348001270 substrate binding site [chemical binding]; other site 357348001271 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 357348001272 active site 357348001273 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 357348001274 dinuclear metal binding motif [ion binding]; other site 357348001275 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348001276 acyl-CoA synthetase; Validated; Region: PRK09192 357348001277 AMP-binding enzyme; Region: AMP-binding; cl15778 357348001278 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 357348001279 Helix-turn-helix domains; Region: HTH; cl00088 357348001280 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 357348001281 dimerization interface [polypeptide binding]; other site 357348001282 substrate binding pocket [chemical binding]; other site 357348001283 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 357348001284 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348001285 DNA-binding site [nucleotide binding]; DNA binding site 357348001286 UTRA domain; Region: UTRA; cl01230 357348001287 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 357348001288 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 357348001289 active site 357348001290 dimer interface [polypeptide binding]; other site 357348001291 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 357348001292 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 357348001293 dimer interface [polypeptide binding]; other site 357348001294 active site 357348001295 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 357348001296 dimer interface [polypeptide binding]; other site 357348001297 active site 357348001298 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 357348001299 HPr interaction site; other site 357348001300 glycerol kinase (GK) interaction site [polypeptide binding]; other site 357348001301 active site 357348001302 phosphorylation site [posttranslational modification] 357348001303 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 357348001304 dimerization domain swap beta strand [polypeptide binding]; other site 357348001305 regulatory protein interface [polypeptide binding]; other site 357348001306 active site 357348001307 regulatory phosphorylation site [posttranslational modification]; other site 357348001308 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 357348001309 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 357348001310 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 357348001311 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 357348001312 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 357348001313 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 357348001314 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 357348001315 active site turn [active] 357348001316 phosphorylation site [posttranslational modification] 357348001317 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 357348001318 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 357348001319 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 357348001320 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 357348001321 active site 357348001322 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 357348001323 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 357348001324 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 357348001325 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 357348001326 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 357348001327 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 357348001328 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 357348001329 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348001330 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 357348001331 DNA binding residues [nucleotide binding] 357348001332 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 357348001333 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 357348001334 2-isopropylmalate synthase; Validated; Region: PRK03739 357348001335 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 357348001336 active site 357348001337 catalytic residues [active] 357348001338 metal binding site [ion binding]; metal-binding site 357348001339 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348001340 glycosyl transferase family protein; Provisional; Region: PRK08136 357348001341 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 357348001342 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 357348001343 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 357348001344 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 357348001345 molybdopterin cofactor binding site; other site 357348001346 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 357348001347 molybdopterin cofactor binding site; other site 357348001348 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 357348001349 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 357348001350 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 357348001351 [2Fe-2S] cluster binding site [ion binding]; other site 357348001352 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 357348001353 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348001354 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 357348001355 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 357348001356 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 357348001357 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 357348001358 maleylacetoacetate isomerase; Region: maiA; TIGR01262 357348001359 C-terminal domain interface [polypeptide binding]; other site 357348001360 GSH binding site (G-site) [chemical binding]; other site 357348001361 putative dimer interface [polypeptide binding]; other site 357348001362 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 357348001363 dimer interface [polypeptide binding]; other site 357348001364 N-terminal domain interface [polypeptide binding]; other site 357348001365 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 357348001366 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 357348001367 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 357348001368 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 357348001369 P loop; other site 357348001370 GTP binding site [chemical binding]; other site 357348001371 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348001372 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 357348001373 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 357348001374 active site 357348001375 (T/H)XGH motif; other site 357348001376 hypothetical protein; Provisional; Region: PRK13795 357348001377 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 357348001378 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 357348001379 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348001380 homodimer interface [polypeptide binding]; other site 357348001381 catalytic residue [active] 357348001382 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 357348001383 putative active site [active] 357348001384 catalytic residue [active] 357348001385 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 357348001386 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 357348001387 5S rRNA interface [nucleotide binding]; other site 357348001388 CTC domain interface [polypeptide binding]; other site 357348001389 L16 interface [polypeptide binding]; other site 357348001390 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 357348001391 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 357348001392 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 357348001393 active site 357348001394 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 357348001395 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 357348001396 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70); Region: 3a0801s09; TIGR00990 357348001397 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 357348001398 binding surface 357348001399 TPR motif; other site 357348001400 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 357348001401 TPR motif; other site 357348001402 binding surface 357348001403 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 357348001404 binding surface 357348001405 TPR motif; other site 357348001406 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 357348001407 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 357348001408 DNA binding site [nucleotide binding] 357348001409 catalytic residue [active] 357348001410 H2TH interface [polypeptide binding]; other site 357348001411 putative catalytic residues [active] 357348001412 turnover-facilitating residue; other site 357348001413 intercalation triad [nucleotide binding]; other site 357348001414 8OG recognition residue [nucleotide binding]; other site 357348001415 putative reading head residues; other site 357348001416 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 357348001417 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 357348001418 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 357348001419 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 357348001420 minor groove reading motif; other site 357348001421 helix-hairpin-helix signature motif; other site 357348001422 active site 357348001423 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 357348001424 DNA binding and oxoG recognition site [nucleotide binding] 357348001425 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 357348001426 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 357348001427 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 357348001428 HPr kinase/phosphorylase; Provisional; Region: PRK05428 357348001429 DRTGG domain; Region: DRTGG; cl12147 357348001430 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 357348001431 Hpr binding site; other site 357348001432 active site 357348001433 homohexamer subunit interaction site [polypeptide binding]; other site 357348001434 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 357348001435 active site 357348001436 phosphorylation site [posttranslational modification] 357348001437 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 357348001438 30S subunit binding site; other site 357348001439 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 357348001440 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 357348001441 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 357348001442 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 357348001443 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 357348001444 Walker A/P-loop; other site 357348001445 ATP binding site [chemical binding]; other site 357348001446 Q-loop/lid; other site 357348001447 ABC transporter signature motif; other site 357348001448 Walker B; other site 357348001449 D-loop; other site 357348001450 H-loop/switch region; other site 357348001451 OstA-like protein; Region: OstA; cl00844 357348001452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 357348001453 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 357348001454 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 357348001455 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348001456 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 357348001457 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 357348001458 putative active site [active] 357348001459 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 357348001460 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 357348001461 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 357348001462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348001463 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 357348001464 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 357348001465 active site 357348001466 LysE type translocator; Region: LysE; cl00565 357348001467 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 357348001468 nudix motif; other site 357348001469 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 357348001470 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 357348001471 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 357348001472 putative active site [active] 357348001473 putative substrate binding site [chemical binding]; other site 357348001474 putative cosubstrate binding site; other site 357348001475 catalytic site [active] 357348001476 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 357348001477 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 357348001478 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 357348001479 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 357348001480 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 357348001481 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 357348001482 Major Facilitator Superfamily; Region: MFS_1; pfam07690 357348001483 putative substrate translocation pore; other site 357348001484 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 357348001485 dimer interface [polypeptide binding]; other site 357348001486 ssDNA binding site [nucleotide binding]; other site 357348001487 tetramer (dimer of dimers) interface [polypeptide binding]; other site 357348001488 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 357348001489 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348001490 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 357348001491 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 357348001492 virulence protein SpvB; Provisional; Region: PRK15244 357348001493 Family description; Region: VCBS; pfam13517 357348001494 Family description; Region: VCBS; pfam13517 357348001495 Family description; Region: VCBS; pfam13517 357348001496 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 357348001497 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 357348001498 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 357348001499 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 357348001500 Tetratricopeptide repeat; Region: TPR_12; pfam13424 357348001501 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 357348001502 phosphopeptide binding site; other site 357348001503 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348001504 active site 357348001505 ATP binding site [chemical binding]; other site 357348001506 substrate binding site [chemical binding]; other site 357348001507 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 357348001508 activation loop (A-loop); other site 357348001509 cyclase homology domain; Region: CHD; cd07302 357348001510 dimer interface [polypeptide binding]; other site 357348001511 nucleotidyl binding site; other site 357348001512 metal binding site [ion binding]; metal-binding site 357348001513 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348001514 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 357348001515 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 357348001516 MoeZ/MoeB domain; Region: MoeZ_MoeB; cl14816 357348001517 YcaO-like family; Region: YcaO; pfam02624 357348001518 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 357348001519 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 357348001520 intersubunit interface [polypeptide binding]; other site 357348001521 active site 357348001522 Zn2+ binding site [ion binding]; other site 357348001523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 357348001524 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 357348001525 metal binding site [ion binding]; metal-binding site 357348001526 active site 357348001527 I-site; other site 357348001528 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 357348001529 MatE; Region: MatE; cl10513 357348001530 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 357348001531 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 357348001532 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 357348001533 Substrate binding site; other site 357348001534 Cupin domain; Region: Cupin_2; cl09118 357348001535 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348001536 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 357348001537 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 357348001538 putative ADP-binding pocket [chemical binding]; other site 357348001539 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 357348001540 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 357348001541 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 357348001542 Walker A motif; other site 357348001543 ATP binding site [chemical binding]; other site 357348001544 Walker B motif; other site 357348001545 arginine finger; other site 357348001546 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 357348001547 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 357348001548 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 357348001549 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 357348001550 dimer interface [polypeptide binding]; other site 357348001551 motif 1; other site 357348001552 active site 357348001553 motif 2; other site 357348001554 motif 3; other site 357348001555 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348001556 active site 357348001557 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348001558 active site 357348001559 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348001560 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 357348001561 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 357348001562 ligand binding site [chemical binding]; other site 357348001563 flexible hinge region; other site 357348001564 Helix-turn-helix domains; Region: HTH; cl00088 357348001565 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 357348001566 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 357348001567 Helix-turn-helix domains; Region: HTH; cl00088 357348001568 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 357348001569 Bacterial sugar transferase; Region: Bac_transf; cl00939 357348001570 polysaccharide export protein Wza; Provisional; Region: PRK15078 357348001571 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 357348001572 SLBB domain; Region: SLBB; pfam10531 357348001573 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 357348001574 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 357348001575 CHRD domain; Region: CHRD; cl06473 357348001576 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 357348001577 EcsC protein family; Region: EcsC; pfam12787 357348001578 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 357348001579 Major Facilitator Superfamily; Region: MFS_1; pfam07690 357348001580 putative substrate translocation pore; other site 357348001581 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 357348001582 Transcriptional regulators [Transcription]; Region: MarR; COG1846 357348001583 Helix-turn-helix domains; Region: HTH; cl00088 357348001584 Helix-turn-helix domains; Region: HTH; cl00088 357348001585 intracellular protease, PfpI family; Region: PfpI; TIGR01382 357348001586 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 357348001587 conserved cys residue [active] 357348001588 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 357348001589 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 357348001590 dimer interface [polypeptide binding]; other site 357348001591 active site 357348001592 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 357348001593 substrate binding site [chemical binding]; other site 357348001594 catalytic residue [active] 357348001595 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 357348001596 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 357348001597 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 357348001598 putative active site [active] 357348001599 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 357348001600 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 357348001601 active site 357348001602 putative substrate binding pocket [chemical binding]; other site 357348001603 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 357348001604 homotrimer interaction site [polypeptide binding]; other site 357348001605 putative active site [active] 357348001606 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 357348001607 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 357348001608 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 357348001609 threonine dehydratase; Reviewed; Region: PRK09224 357348001610 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 357348001611 tetramer interface [polypeptide binding]; other site 357348001612 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348001613 catalytic residue [active] 357348001614 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 357348001615 putative Ile/Val binding site [chemical binding]; other site 357348001616 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 357348001617 putative Ile/Val binding site [chemical binding]; other site 357348001618 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 357348001619 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 357348001620 FAD binding domain; Region: FAD_binding_4; pfam01565 357348001621 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 357348001622 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 357348001623 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 357348001624 Cysteine-rich domain; Region: CCG; pfam02754 357348001625 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 357348001626 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 357348001627 nucleotide binding site/active site [active] 357348001628 HIT family signature motif; other site 357348001629 catalytic residue [active] 357348001630 Protein of unknown function (DUF971); Region: DUF971; cl01414 357348001631 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 357348001632 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 357348001633 S-adenosylmethionine binding site [chemical binding]; other site 357348001634 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348001635 Tim44-like domain; Region: Tim44; cl09208 357348001636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 357348001637 SCP-2 sterol transfer family; Region: SCP2; cl01225 357348001638 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348001639 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348001640 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 357348001641 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 357348001642 Protein of unknown function (DUF502); Region: DUF502; cl01107 357348001643 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 357348001644 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 357348001645 dimer interface [polypeptide binding]; other site 357348001646 anticodon binding site; other site 357348001647 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 357348001648 homodimer interface [polypeptide binding]; other site 357348001649 motif 1; other site 357348001650 active site 357348001651 motif 2; other site 357348001652 GAD domain; Region: GAD; pfam02938 357348001653 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 357348001654 motif 3; other site 357348001655 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_7; cd04664 357348001656 nudix motif; other site 357348001657 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 357348001658 PLD-like domain; Region: PLDc_2; pfam13091 357348001659 putative active site [active] 357348001660 catalytic site [active] 357348001661 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 357348001662 putative active site [active] 357348001663 catalytic site [active] 357348001664 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348001665 Helix-turn-helix domains; Region: HTH; cl00088 357348001666 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 357348001667 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 357348001668 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 357348001669 FAD binding site [chemical binding]; other site 357348001670 substrate binding site [chemical binding]; other site 357348001671 catalytic residues [active] 357348001672 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 357348001673 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 357348001674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348001675 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 357348001676 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 357348001677 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348001678 substrate binding site [chemical binding]; other site 357348001679 oxyanion hole (OAH) forming residues; other site 357348001680 trimer interface [polypeptide binding]; other site 357348001681 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 357348001682 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 357348001683 dimer interface [polypeptide binding]; other site 357348001684 active site 357348001685 enoyl-CoA hydratase; Provisional; Region: PRK06688 357348001686 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348001687 substrate binding site [chemical binding]; other site 357348001688 oxyanion hole (OAH) forming residues; other site 357348001689 trimer interface [polypeptide binding]; other site 357348001690 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 357348001691 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 357348001692 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; cl09869 357348001693 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 357348001694 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 357348001695 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 357348001696 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348001697 Walker A/P-loop; other site 357348001698 ATP binding site [chemical binding]; other site 357348001699 Q-loop/lid; other site 357348001700 ABC transporter signature motif; other site 357348001701 Walker B; other site 357348001702 D-loop; other site 357348001703 H-loop/switch region; other site 357348001704 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 357348001705 Substrate binding site; other site 357348001706 metal-binding site 357348001707 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348001708 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 357348001709 Organic solvent tolerance protein; Region: OstA_C; pfam04453 357348001710 SurA N-terminal domain; Region: SurA_N_3; cl07813 357348001711 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 357348001712 PPIC-type PPIASE domain; Region: Rotamase; cl08278 357348001713 PPIC-type PPIASE domain; Region: Rotamase; cl08278 357348001714 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 357348001715 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348001716 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 357348001717 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348001718 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 357348001719 dimer interface [polypeptide binding]; other site 357348001720 active site 357348001721 metal binding site [ion binding]; metal-binding site 357348001722 glutathione binding site [chemical binding]; other site 357348001723 Protein of unknown function DUF45; Region: DUF45; cl00636 357348001724 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 357348001725 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 357348001726 putative acyl-acceptor binding pocket; other site 357348001727 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 357348001728 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 357348001729 active site 357348001730 motif I; other site 357348001731 motif II; other site 357348001732 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 357348001733 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 357348001734 dimer interface [polypeptide binding]; other site 357348001735 motif 1; other site 357348001736 active site 357348001737 motif 2; other site 357348001738 motif 3; other site 357348001739 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 357348001740 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 357348001741 putative active site [active] 357348001742 catalytic triad [active] 357348001743 putative dimer interface [polypeptide binding]; other site 357348001744 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 357348001745 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 357348001746 Transporter associated domain; Region: CorC_HlyC; cl08393 357348001747 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 357348001748 putative active site pocket [active] 357348001749 dimerization interface [polypeptide binding]; other site 357348001750 putative catalytic residue [active] 357348001751 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 357348001752 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 357348001753 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348001754 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 357348001755 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 357348001756 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 357348001757 FeS/SAM binding site; other site 357348001758 TRAM domain; Region: TRAM; cl01282 357348001759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348001760 Helix-turn-helix domains; Region: HTH; cl00088 357348001761 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348001762 putative effector binding pocket; other site 357348001763 dimerization interface [polypeptide binding]; other site 357348001764 MFS transport protein AraJ; Provisional; Region: PRK10091 357348001765 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 357348001766 putative substrate translocation pore; other site 357348001767 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 357348001768 non-specific DNA binding site [nucleotide binding]; other site 357348001769 salt bridge; other site 357348001770 sequence-specific DNA binding site [nucleotide binding]; other site 357348001771 Cupin domain; Region: Cupin_2; cl09118 357348001772 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 357348001773 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 357348001774 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 357348001775 motif II; other site 357348001776 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 357348001777 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348001778 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 357348001779 active site 357348001780 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 357348001781 dimer interface [polypeptide binding]; other site 357348001782 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 357348001783 Ligand Binding Site [chemical binding]; other site 357348001784 Molecular Tunnel; other site 357348001785 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 357348001786 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 357348001787 hinge; other site 357348001788 active site 357348001789 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 357348001790 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 357348001791 putative active site [active] 357348001792 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 357348001793 homotrimer interaction site [polypeptide binding]; other site 357348001794 putative active site [active] 357348001795 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 357348001796 amphipathic channel; other site 357348001797 Asn-Pro-Ala signature motifs; other site 357348001798 glycerol kinase; Provisional; Region: glpK; PRK00047 357348001799 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 357348001800 N- and C-terminal domain interface [polypeptide binding]; other site 357348001801 active site 357348001802 MgATP binding site [chemical binding]; other site 357348001803 catalytic site [active] 357348001804 metal binding site [ion binding]; metal-binding site 357348001805 glycerol binding site [chemical binding]; other site 357348001806 homotetramer interface [polypeptide binding]; other site 357348001807 homodimer interface [polypeptide binding]; other site 357348001808 FBP binding site [chemical binding]; other site 357348001809 protein IIAGlc interface [polypeptide binding]; other site 357348001810 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 357348001811 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 357348001812 Helix-turn-helix domains; Region: HTH; cl00088 357348001813 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 357348001814 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 357348001815 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 357348001816 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 357348001817 dinuclear metal binding motif [ion binding]; other site 357348001818 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 357348001819 ATP binding site [chemical binding]; other site 357348001820 Mg++ binding site [ion binding]; other site 357348001821 motif III; other site 357348001822 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 357348001823 nucleotide binding region [chemical binding]; other site 357348001824 ATP-binding site [chemical binding]; other site 357348001825 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 357348001826 Cytochrome c; Region: Cytochrom_C; cl11414 357348001827 Cytochrome c; Region: Cytochrom_C; cl11414 357348001828 Cytochrome c; Region: Cytochrom_C; cl11414 357348001829 Copper resistance protein D; Region: CopD; cl00563 357348001830 galactonate dehydratase; Provisional; Region: PRK14017 357348001831 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 357348001832 putative active site pocket [active] 357348001833 putative metal binding site [ion binding]; other site 357348001834 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 357348001835 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 357348001836 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 357348001837 active site 357348001838 metal binding site [ion binding]; metal-binding site 357348001839 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 357348001840 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 357348001841 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 357348001842 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 357348001843 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 357348001844 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 357348001845 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 357348001846 dimer interface [polypeptide binding]; other site 357348001847 phosphorylation site [posttranslational modification] 357348001848 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 357348001849 ATP binding site [chemical binding]; other site 357348001850 Mg2+ binding site [ion binding]; other site 357348001851 G-X-G motif; other site 357348001852 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 357348001853 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 357348001854 active site 357348001855 phosphorylation site [posttranslational modification] 357348001856 intermolecular recognition site; other site 357348001857 dimerization interface [polypeptide binding]; other site 357348001858 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 357348001859 Zn2+ binding site [ion binding]; other site 357348001860 Mg2+ binding site [ion binding]; other site 357348001861 Domain of unknown function (DUF305); Region: DUF305; cl15795 357348001862 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 357348001863 PAS domain; Region: PAS_9; pfam13426 357348001864 putative active site [active] 357348001865 heme pocket [chemical binding]; other site 357348001866 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 357348001867 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 357348001868 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348001869 dimer interface [polypeptide binding]; other site 357348001870 putative CheW interface [polypeptide binding]; other site 357348001871 FAD binding domain; Region: FAD_binding_4; pfam01565 357348001872 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 357348001873 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 357348001874 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 357348001875 dimerization interface [polypeptide binding]; other site 357348001876 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 357348001877 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 357348001878 active site residue [active] 357348001879 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 357348001880 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 357348001881 Walker A/P-loop; other site 357348001882 ATP binding site [chemical binding]; other site 357348001883 Q-loop/lid; other site 357348001884 ABC transporter signature motif; other site 357348001885 Walker B; other site 357348001886 D-loop; other site 357348001887 H-loop/switch region; other site 357348001888 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 357348001889 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 357348001890 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 357348001891 dimer interface [polypeptide binding]; other site 357348001892 conserved gate region; other site 357348001893 putative PBP binding loops; other site 357348001894 ABC-ATPase subunit interface; other site 357348001895 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 357348001896 Erythromycin esterase; Region: Erythro_esteras; pfam05139 357348001897 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 357348001898 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 357348001899 active site 357348001900 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 357348001901 active site 357348001902 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 357348001903 Transglycosylase; Region: Transgly; cl07896 357348001904 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348001905 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 357348001906 Cytochrome c; Region: Cytochrom_C; cl11414 357348001907 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 357348001908 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 357348001909 D-pathway; other site 357348001910 Putative ubiquinol binding site [chemical binding]; other site 357348001911 Low-spin heme (heme b) binding site [chemical binding]; other site 357348001912 Putative water exit pathway; other site 357348001913 Binuclear center (heme o3/CuB) [ion binding]; other site 357348001914 K-pathway; other site 357348001915 Putative proton exit pathway; other site 357348001916 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 357348001917 Subunit I/III interface [polypeptide binding]; other site 357348001918 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348001919 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 357348001920 Cytochrome c; Region: Cytochrom_C; cl11414 357348001921 thiamine pyrophosphate protein; Provisional; Region: PRK08273 357348001922 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 357348001923 PYR/PP interface [polypeptide binding]; other site 357348001924 dimer interface [polypeptide binding]; other site 357348001925 tetramer interface [polypeptide binding]; other site 357348001926 TPP binding site [chemical binding]; other site 357348001927 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 357348001928 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 357348001929 TPP-binding site [chemical binding]; other site 357348001930 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 357348001931 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 357348001932 metal binding site [ion binding]; metal-binding site 357348001933 substrate binding pocket [chemical binding]; other site 357348001934 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 357348001935 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 357348001936 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 357348001937 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 357348001938 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 357348001939 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 357348001940 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 357348001941 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 357348001942 active site 357348001943 transcriptional regulator; Provisional; Region: PRK10632 357348001944 Helix-turn-helix domains; Region: HTH; cl00088 357348001945 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 357348001946 putative effector binding pocket; other site 357348001947 putative dimerization interface [polypeptide binding]; other site 357348001948 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 357348001949 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 357348001950 dimer interface [polypeptide binding]; other site 357348001951 phosphorylation site [posttranslational modification] 357348001952 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 357348001953 ATP binding site [chemical binding]; other site 357348001954 Mg2+ binding site [ion binding]; other site 357348001955 G-X-G motif; other site 357348001956 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 357348001957 Response regulator receiver domain; Region: Response_reg; pfam00072 357348001958 active site 357348001959 phosphorylation site [posttranslational modification] 357348001960 intermolecular recognition site; other site 357348001961 dimerization interface [polypeptide binding]; other site 357348001962 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 357348001963 BetR domain; Region: BetR; pfam08667 357348001964 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 357348001965 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 357348001966 active site 357348001967 phosphorylation site [posttranslational modification] 357348001968 intermolecular recognition site; other site 357348001969 dimerization interface [polypeptide binding]; other site 357348001970 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 357348001971 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 357348001972 Abortive infection C-terminus; Region: Abi_C; pfam14355 357348001973 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 357348001974 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 357348001975 active site 357348001976 DNA binding site [nucleotide binding] 357348001977 Int/Topo IB signature motif; other site 357348001978 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 357348001979 putative substrate translocation pore; other site 357348001980 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348001981 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 357348001982 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 357348001983 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 357348001984 dimer interface [polypeptide binding]; other site 357348001985 phosphorylation site [posttranslational modification] 357348001986 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 357348001987 ATP binding site [chemical binding]; other site 357348001988 Mg2+ binding site [ion binding]; other site 357348001989 G-X-G motif; other site 357348001990 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 357348001991 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 357348001992 active site 357348001993 phosphorylation site [posttranslational modification] 357348001994 intermolecular recognition site; other site 357348001995 dimerization interface [polypeptide binding]; other site 357348001996 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 357348001997 DNA binding site [nucleotide binding] 357348001998 recombinase A; Provisional; Region: recA; PRK09354 357348001999 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 357348002000 hexamer interface [polypeptide binding]; other site 357348002001 Walker A motif; other site 357348002002 ATP binding site [chemical binding]; other site 357348002003 Walker B motif; other site 357348002004 RecX family; Region: RecX; cl00936 357348002005 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 357348002006 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 357348002007 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348002008 CoA-ligase; Region: Ligase_CoA; cl02894 357348002009 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 357348002010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348002011 CoA-ligase; Region: Ligase_CoA; cl02894 357348002012 Integral membrane protein TerC family; Region: TerC; cl10468 357348002013 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 357348002014 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 357348002015 O-Antigen ligase; Region: Wzy_C; cl04850 357348002016 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 357348002017 Protein of unknown function (DUF2501); Region: DUF2501; cl08197 357348002018 Gram-negative bacterial tonB protein; Region: TonB; cl10048 357348002019 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 357348002020 trimer interface [polypeptide binding]; other site 357348002021 dimer interface [polypeptide binding]; other site 357348002022 putative active site [active] 357348002023 Peptidase family M48; Region: Peptidase_M48; cl12018 357348002024 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 357348002025 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 357348002026 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 357348002027 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 357348002028 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 357348002029 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 357348002030 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 357348002031 putative active site [active] 357348002032 Zinc-finger domain; Region: zf-CHCC; cl01821 357348002033 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 357348002034 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 357348002035 homodimer interface [polypeptide binding]; other site 357348002036 substrate-cofactor binding pocket; other site 357348002037 catalytic residue [active] 357348002038 AzlC protein; Region: AzlC; cl00570 357348002039 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 357348002040 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 357348002041 Phosphoglycerate kinase; Region: PGK; pfam00162 357348002042 substrate binding site [chemical binding]; other site 357348002043 hinge regions; other site 357348002044 ADP binding site [chemical binding]; other site 357348002045 catalytic site [active] 357348002046 pyruvate kinase; Provisional; Region: PRK05826 357348002047 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 357348002048 domain interfaces; other site 357348002049 active site 357348002050 hypothetical protein; Provisional; Region: PRK08185 357348002051 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 357348002052 intersubunit interface [polypeptide binding]; other site 357348002053 active site 357348002054 zinc binding site [ion binding]; other site 357348002055 Na+ binding site [ion binding]; other site 357348002056 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 357348002057 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 357348002058 ATP binding site [chemical binding]; other site 357348002059 active site 357348002060 substrate binding site [chemical binding]; other site 357348002061 AIR carboxylase; Region: AIRC; cl00310 357348002062 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 357348002063 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348002064 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 357348002065 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 357348002066 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 357348002067 active site 357348002068 catalytic triad [active] 357348002069 oxyanion hole [active] 357348002070 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 357348002071 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 357348002072 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348002073 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 357348002074 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 357348002075 active site 357348002076 phosphorylation site [posttranslational modification] 357348002077 intermolecular recognition site; other site 357348002078 dimerization interface [polypeptide binding]; other site 357348002079 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 357348002080 DNA binding site [nucleotide binding] 357348002081 sensor protein QseC; Provisional; Region: PRK10337 357348002082 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 357348002083 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 357348002084 ATP binding site [chemical binding]; other site 357348002085 Mg2+ binding site [ion binding]; other site 357348002086 G-X-G motif; other site 357348002087 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 357348002088 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 357348002089 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 357348002090 protein binding site [polypeptide binding]; other site 357348002091 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 357348002092 protein binding site [polypeptide binding]; other site 357348002093 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 357348002094 Domain of unknown function (DUF427); Region: DUF427; cl00998 357348002095 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 357348002096 hydrophobic ligand binding site; other site 357348002097 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 357348002098 Helix-turn-helix domains; Region: HTH; cl00088 357348002099 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 357348002100 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 357348002101 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 357348002102 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 357348002103 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 357348002104 Protein export membrane protein; Region: SecD_SecF; cl14618 357348002105 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 357348002106 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 357348002107 xanthine permease; Region: pbuX; TIGR03173 357348002108 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 357348002109 N- and C-terminal domain interface [polypeptide binding]; other site 357348002110 active site 357348002111 MgATP binding site [chemical binding]; other site 357348002112 catalytic site [active] 357348002113 metal binding site [ion binding]; metal-binding site 357348002114 carbohydrate binding site [chemical binding]; other site 357348002115 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 357348002116 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 357348002117 conserved cys residue [active] 357348002118 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348002119 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 357348002120 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 357348002121 substrate binding site [chemical binding]; other site 357348002122 catalytic Zn binding site [ion binding]; other site 357348002123 NAD binding site [chemical binding]; other site 357348002124 structural Zn binding site [ion binding]; other site 357348002125 dimer interface [polypeptide binding]; other site 357348002126 Predicted esterase [General function prediction only]; Region: COG0627 357348002127 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 357348002128 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 357348002129 dimer interface [polypeptide binding]; other site 357348002130 putative PBP binding regions; other site 357348002131 ABC-ATPase subunit interface; other site 357348002132 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 357348002133 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 357348002134 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 357348002135 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 357348002136 metal binding site [ion binding]; metal-binding site 357348002137 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 357348002138 metal binding site 2 [ion binding]; metal-binding site 357348002139 putative DNA binding helix; other site 357348002140 metal binding site 1 [ion binding]; metal-binding site 357348002141 dimer interface [polypeptide binding]; other site 357348002142 structural Zn2+ binding site [ion binding]; other site 357348002143 sorbitol dehydrogenase; Provisional; Region: PRK07067 357348002144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348002145 NAD(P) binding site [chemical binding]; other site 357348002146 active site 357348002147 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 357348002148 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 357348002149 substrate binding site [chemical binding]; other site 357348002150 ATP binding site [chemical binding]; other site 357348002151 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 357348002152 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 357348002153 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 357348002154 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 357348002155 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 357348002156 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 357348002157 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 357348002158 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 357348002159 dimer interface [polypeptide binding]; other site 357348002160 conserved gate region; other site 357348002161 putative PBP binding loops; other site 357348002162 ABC-ATPase subunit interface; other site 357348002163 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 357348002164 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 357348002165 active site 357348002166 motif I; other site 357348002167 motif II; other site 357348002168 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 357348002169 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 357348002170 Walker A/P-loop; other site 357348002171 ATP binding site [chemical binding]; other site 357348002172 Q-loop/lid; other site 357348002173 ABC transporter signature motif; other site 357348002174 Walker B; other site 357348002175 D-loop; other site 357348002176 H-loop/switch region; other site 357348002177 TOBE domain; Region: TOBE_2; cl01440 357348002178 TOBE domain; Region: TOBE_2; cl01440 357348002179 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348002180 LysR family transcriptional regulator; Provisional; Region: PRK14997 357348002181 Helix-turn-helix domains; Region: HTH; cl00088 357348002182 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 357348002183 putative effector binding pocket; other site 357348002184 putative dimerization interface [polypeptide binding]; other site 357348002185 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348002186 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 357348002187 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 357348002188 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 357348002189 Helix-turn-helix domains; Region: HTH; cl00088 357348002190 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 357348002191 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 357348002192 N- and C-terminal domain interface [polypeptide binding]; other site 357348002193 active site 357348002194 catalytic site [active] 357348002195 metal binding site [ion binding]; metal-binding site 357348002196 xylulose binding site [chemical binding]; other site 357348002197 putative ATP binding site [chemical binding]; other site 357348002198 homodimer interface [polypeptide binding]; other site 357348002199 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 357348002200 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 357348002201 Helix-turn-helix domains; Region: HTH; cl00088 357348002202 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 357348002203 dimerization interface [polypeptide binding]; other site 357348002204 benzoylformate decarboxylase; Reviewed; Region: PRK07092 357348002205 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 357348002206 PYR/PP interface [polypeptide binding]; other site 357348002207 dimer interface [polypeptide binding]; other site 357348002208 TPP binding site [chemical binding]; other site 357348002209 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 357348002210 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 357348002211 TPP-binding site [chemical binding]; other site 357348002212 dimer interface [polypeptide binding]; other site 357348002213 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 357348002214 NAD(P) binding site [chemical binding]; other site 357348002215 catalytic residues [active] 357348002216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348002217 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 357348002218 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 357348002219 benzoate transport; Region: 2A0115; TIGR00895 357348002220 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 357348002221 putative substrate translocation pore; other site 357348002222 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 357348002223 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 357348002224 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 357348002225 kynureninase; Region: kynureninase; TIGR01814 357348002226 Putative cyclase; Region: Cyclase; cl00814 357348002227 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348002228 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 357348002229 putative DNA binding site [nucleotide binding]; other site 357348002230 putative Zn2+ binding site [ion binding]; other site 357348002231 AsnC family; Region: AsnC_trans_reg; pfam01037 357348002232 Flavin Reductases; Region: FlaRed; cl00801 357348002233 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 357348002234 Protein of unknown function DUF72; Region: DUF72; cl00777 357348002235 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 357348002236 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 357348002237 S-adenosylmethionine binding site [chemical binding]; other site 357348002238 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 357348002239 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 357348002240 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 357348002241 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 357348002242 putative ATP binding site [chemical binding]; other site 357348002243 putative substrate interface [chemical binding]; other site 357348002244 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 357348002245 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 357348002246 catalytic residues [active] 357348002247 Pirin-related protein [General function prediction only]; Region: COG1741 357348002248 Cupin domain; Region: Cupin_2; cl09118 357348002249 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 357348002250 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 357348002251 EamA-like transporter family; Region: EamA; cl01037 357348002252 AMIN domain; Region: AMIN; pfam11741 357348002253 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 357348002254 active site 357348002255 metal binding site [ion binding]; metal-binding site 357348002256 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 357348002257 iron-sulfur cluster binding protein, putative; Region: TIGR00276 357348002258 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 357348002259 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 357348002260 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 357348002261 DNA binding site [nucleotide binding] 357348002262 active site 357348002263 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 357348002264 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 357348002265 active site 357348002266 Int/Topo IB signature motif; other site 357348002267 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 357348002268 AMP-binding enzyme; Region: AMP-binding; cl15778 357348002269 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 357348002270 putative deacylase active site [active] 357348002271 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 357348002272 Protein of unknown function (DUF520); Region: DUF520; cl00723 357348002273 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 357348002274 FAD binding domain; Region: FAD_binding_4; pfam01565 357348002275 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 357348002276 ornithine carbamoyltransferase; Provisional; Region: PRK00779 357348002277 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 357348002278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348002279 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 357348002280 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 357348002281 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 357348002282 Uncharacterized conserved protein [Function unknown]; Region: COG2912 357348002283 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 357348002284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348002285 NAD(P) binding site [chemical binding]; other site 357348002286 active site 357348002287 adenylate kinase; Reviewed; Region: adk; PRK00279 357348002288 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 357348002289 AMP-binding site [chemical binding]; other site 357348002290 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 357348002291 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 357348002292 Ligand binding site; other site 357348002293 oligomer interface; other site 357348002294 Trm112p-like protein; Region: Trm112p; cl01066 357348002295 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 357348002296 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 357348002297 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 357348002298 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 357348002299 generic binding surface II; other site 357348002300 generic binding surface I; other site 357348002301 superoxide dismutase; Provisional; Region: PRK10543 357348002302 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 357348002303 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 357348002304 Chromate transporter; Region: Chromate_transp; pfam02417 357348002305 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 357348002306 Chromate transporter; Region: Chromate_transp; pfam02417 357348002307 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 357348002308 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 357348002309 ligand binding site [chemical binding]; other site 357348002310 flexible hinge region; other site 357348002311 Helix-turn-helix domains; Region: HTH; cl00088 357348002312 Protein of unknown function (DUF962); Region: DUF962; cl01879 357348002313 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 357348002314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348002315 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 357348002316 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348002317 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 357348002318 putative transporter; Provisional; Region: PRK10504 357348002319 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 357348002320 putative substrate translocation pore; other site 357348002321 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 357348002322 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 357348002323 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 357348002324 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 357348002325 dimer interface [polypeptide binding]; other site 357348002326 active site 357348002327 oxalacetate/citrate binding site [chemical binding]; other site 357348002328 citrylCoA binding site [chemical binding]; other site 357348002329 coenzyme A binding site [chemical binding]; other site 357348002330 catalytic triad [active] 357348002331 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 357348002332 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348002333 DNA-binding site [nucleotide binding]; DNA binding site 357348002334 UTRA domain; Region: UTRA; cl01230 357348002335 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 357348002336 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 357348002337 active site 357348002338 catalytic tetrad [active] 357348002339 elongation factor G; Reviewed; Region: PRK00007 357348002340 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 357348002341 G1 box; other site 357348002342 putative GEF interaction site [polypeptide binding]; other site 357348002343 GTP/Mg2+ binding site [chemical binding]; other site 357348002344 Switch I region; other site 357348002345 G2 box; other site 357348002346 G3 box; other site 357348002347 Switch II region; other site 357348002348 G4 box; other site 357348002349 G5 box; other site 357348002350 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 357348002351 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 357348002352 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 357348002353 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 357348002354 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 357348002355 pseudouridine synthase; Region: TIGR00093 357348002356 active site 357348002357 isocitrate dehydrogenase; Validated; Region: PRK07362 357348002358 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 357348002359 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 357348002360 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348002361 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348002362 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 357348002363 DNA-binding site [nucleotide binding]; DNA binding site 357348002364 RNA-binding motif; other site 357348002365 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 357348002366 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 357348002367 Clp amino terminal domain; Region: Clp_N; pfam02861 357348002368 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 357348002369 Walker A motif; other site 357348002370 ATP binding site [chemical binding]; other site 357348002371 Walker B motif; other site 357348002372 arginine finger; other site 357348002373 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 357348002374 Walker A motif; other site 357348002375 ATP binding site [chemical binding]; other site 357348002376 Walker B motif; other site 357348002377 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 357348002378 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 357348002379 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 357348002380 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 357348002381 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 357348002382 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 357348002383 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 357348002384 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 357348002385 trimer interface [polypeptide binding]; other site 357348002386 active site 357348002387 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 357348002388 Flavoprotein; Region: Flavoprotein; cl08021 357348002389 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 357348002390 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 357348002391 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 357348002392 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348002393 active site 357348002394 HIGH motif; other site 357348002395 nucleotide binding site [chemical binding]; other site 357348002396 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 357348002397 active site 357348002398 KMSKS motif; other site 357348002399 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 357348002400 tRNA binding surface [nucleotide binding]; other site 357348002401 anticodon binding site; other site 357348002402 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 357348002403 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 357348002404 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 357348002405 active site 357348002406 Riboflavin kinase; Region: Flavokinase; cl03312 357348002407 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 357348002408 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 357348002409 active site 357348002410 substrate binding site [chemical binding]; other site 357348002411 cosubstrate binding site; other site 357348002412 catalytic site [active] 357348002413 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 357348002414 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348002415 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 357348002416 Mechanosensitive ion channel; Region: MS_channel; pfam00924 357348002417 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 357348002418 Di-iron ligands [ion binding]; other site 357348002419 Transposase; Region: DDE_Tnp_ISL3; pfam01610 357348002420 Quinolinate synthetase A protein; Region: NadA; cl00420 357348002421 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 357348002422 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 357348002423 dimerization interface [polypeptide binding]; other site 357348002424 active site 357348002425 L-aspartate oxidase; Provisional; Region: PRK09077 357348002426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348002427 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 357348002428 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 357348002429 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 357348002430 hypothetical protein; Reviewed; Region: PRK00024 357348002431 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 357348002432 MPN+ (JAMM) motif; other site 357348002433 Zinc-binding site [ion binding]; other site 357348002434 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 357348002435 LytB protein; Region: LYTB; cl00507 357348002436 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 357348002437 Transposase domain (DUF772); Region: DUF772; pfam05598 357348002438 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 357348002439 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 357348002440 TM-ABC transporter signature motif; other site 357348002441 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 357348002442 TM-ABC transporter signature motif; other site 357348002443 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 357348002444 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 357348002445 Walker A/P-loop; other site 357348002446 ATP binding site [chemical binding]; other site 357348002447 Q-loop/lid; other site 357348002448 ABC transporter signature motif; other site 357348002449 Walker B; other site 357348002450 D-loop; other site 357348002451 H-loop/switch region; other site 357348002452 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 357348002453 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 357348002454 Walker A/P-loop; other site 357348002455 ATP binding site [chemical binding]; other site 357348002456 Q-loop/lid; other site 357348002457 ABC transporter signature motif; other site 357348002458 Walker B; other site 357348002459 D-loop; other site 357348002460 H-loop/switch region; other site 357348002461 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 357348002462 Uncharacterized conserved protein [Function unknown]; Region: COG5634 357348002463 putative acetyltransferase; Provisional; Region: PRK03624 357348002464 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348002465 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 357348002466 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 357348002467 inhibitor-cofactor binding pocket; inhibition site 357348002468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348002469 catalytic residue [active] 357348002470 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 357348002471 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 357348002472 catalytic loop [active] 357348002473 iron binding site [ion binding]; other site 357348002474 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 357348002475 FAD binding pocket [chemical binding]; other site 357348002476 FAD binding motif [chemical binding]; other site 357348002477 phosphate binding motif [ion binding]; other site 357348002478 beta-alpha-beta structure motif; other site 357348002479 NAD binding pocket [chemical binding]; other site 357348002480 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 357348002481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348002482 NAD(P) binding site [chemical binding]; other site 357348002483 active site 357348002484 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 357348002485 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 357348002486 RNA binding surface [nucleotide binding]; other site 357348002487 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 357348002488 active site 357348002489 uracil binding [chemical binding]; other site 357348002490 Bacterial Ig-like domain; Region: Big_5; cl01012 357348002491 LysR family transcriptional regulator; Provisional; Region: PRK14997 357348002492 Helix-turn-helix domains; Region: HTH; cl00088 357348002493 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 357348002494 dimerization interface [polypeptide binding]; other site 357348002495 Helix-turn-helix domains; Region: HTH; cl00088 357348002496 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 357348002497 dimerization interface [polypeptide binding]; other site 357348002498 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348002499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 357348002500 MOSC domain; Region: MOSC; pfam03473 357348002501 3-alpha domain; Region: 3-alpha; pfam03475 357348002502 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 357348002503 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 357348002504 inhibitor site; inhibition site 357348002505 active site 357348002506 dimer interface [polypeptide binding]; other site 357348002507 catalytic residue [active] 357348002508 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 357348002509 intersubunit interface [polypeptide binding]; other site 357348002510 active site 357348002511 Zn2+ binding site [ion binding]; other site 357348002512 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 357348002513 non-specific DNA binding site [nucleotide binding]; other site 357348002514 salt bridge; other site 357348002515 sequence-specific DNA binding site [nucleotide binding]; other site 357348002516 Cupin domain; Region: Cupin_2; cl09118 357348002517 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 357348002518 Helix-turn-helix domains; Region: HTH; cl00088 357348002519 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 357348002520 substrate binding site [chemical binding]; other site 357348002521 dimerization interface [polypeptide binding]; other site 357348002522 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 357348002523 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 357348002524 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 357348002525 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 357348002526 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 357348002527 Active Sites [active] 357348002528 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 357348002529 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 357348002530 Active Sites [active] 357348002531 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 357348002532 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 357348002533 CysD dimerization site [polypeptide binding]; other site 357348002534 G1 box; other site 357348002535 putative GEF interaction site [polypeptide binding]; other site 357348002536 GTP/Mg2+ binding site [chemical binding]; other site 357348002537 Switch I region; other site 357348002538 G2 box; other site 357348002539 G3 box; other site 357348002540 Switch II region; other site 357348002541 G4 box; other site 357348002542 G5 box; other site 357348002543 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 357348002544 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 357348002545 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 357348002546 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 357348002547 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 357348002548 putative active site [active] 357348002549 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 357348002550 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 357348002551 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 357348002552 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 357348002553 multifunctional aminopeptidase A; Provisional; Region: PRK00913 357348002554 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 357348002555 interface (dimer of trimers) [polypeptide binding]; other site 357348002556 Substrate-binding/catalytic site; other site 357348002557 Zn-binding sites [ion binding]; other site 357348002558 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 357348002559 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 357348002560 Cytochrome c; Region: Cytochrom_C; cl11414 357348002561 Dehydratase family; Region: ILVD_EDD; cl00340 357348002562 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 357348002563 Helix-turn-helix domains; Region: HTH; cl00088 357348002564 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 357348002565 putative dimerization interface [polypeptide binding]; other site 357348002566 putative substrate binding pocket [chemical binding]; other site 357348002567 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 357348002568 Protein of unknown function (DUF541); Region: SIMPL; cl01077 357348002569 EVE domain; Region: EVE; cl00728 357348002570 Cell division protein ZapA; Region: ZapA; cl01146 357348002571 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 357348002572 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 357348002573 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 357348002574 N-terminal plug; other site 357348002575 ligand-binding site [chemical binding]; other site 357348002576 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 357348002577 ABC-ATPase subunit interface; other site 357348002578 dimer interface [polypeptide binding]; other site 357348002579 putative PBP binding regions; other site 357348002580 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 357348002581 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 357348002582 Walker A/P-loop; other site 357348002583 ATP binding site [chemical binding]; other site 357348002584 Q-loop/lid; other site 357348002585 ABC transporter signature motif; other site 357348002586 Walker B; other site 357348002587 D-loop; other site 357348002588 H-loop/switch region; other site 357348002589 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 357348002590 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 357348002591 putative dimer interface [polypeptide binding]; other site 357348002592 active site pocket [active] 357348002593 putative cataytic base [active] 357348002594 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 357348002595 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 357348002596 catalytic core [active] 357348002597 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 357348002598 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 357348002599 cobalamin binding residues [chemical binding]; other site 357348002600 putative BtuC binding residues; other site 357348002601 dimer interface [polypeptide binding]; other site 357348002602 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 357348002603 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 357348002604 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348002605 CobD/Cbib protein; Region: CobD_Cbib; cl00561 357348002606 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 357348002607 homotrimer interface [polypeptide binding]; other site 357348002608 Walker A motif; other site 357348002609 GTP binding site [chemical binding]; other site 357348002610 Walker B motif; other site 357348002611 cobyric acid synthase; Provisional; Region: PRK00784 357348002612 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348002613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348002614 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 357348002615 catalytic triad [active] 357348002616 DoxX; Region: DoxX; cl00976 357348002617 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 357348002618 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 357348002619 P-loop; other site 357348002620 Magnesium ion binding site [ion binding]; other site 357348002621 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 357348002622 tetramerization interface [polypeptide binding]; other site 357348002623 active site 357348002624 pantoate--beta-alanine ligase; Region: panC; TIGR00018 357348002625 Pantoate-beta-alanine ligase; Region: PanC; cd00560 357348002626 active site 357348002627 ATP-binding site [chemical binding]; other site 357348002628 pantoate-binding site; other site 357348002629 HXXH motif; other site 357348002630 ScpA/B protein; Region: ScpA_ScpB; cl00598 357348002631 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 357348002632 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 357348002633 Surface antigen; Region: Bac_surface_Ag; cl03097 357348002634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 357348002635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 357348002636 Family of unknown function (DUF490); Region: DUF490; pfam04357 357348002637 O-methyltransferase; Region: Methyltransf_2; pfam00891 357348002638 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 357348002639 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 357348002640 active site 357348002641 HIGH motif; other site 357348002642 KMSKS motif; other site 357348002643 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 357348002644 tRNA binding surface [nucleotide binding]; other site 357348002645 anticodon binding site; other site 357348002646 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 357348002647 dimer interface [polypeptide binding]; other site 357348002648 putative tRNA-binding site [nucleotide binding]; other site 357348002649 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348002650 ligand binding site [chemical binding]; other site 357348002651 Domain of unknown function DUF59; Region: DUF59; cl00941 357348002652 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 357348002653 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 357348002654 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 357348002655 E-class dimer interface [polypeptide binding]; other site 357348002656 P-class dimer interface [polypeptide binding]; other site 357348002657 active site 357348002658 Cu2+ binding site [ion binding]; other site 357348002659 Zn2+ binding site [ion binding]; other site 357348002660 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 357348002661 trimer interface [polypeptide binding]; other site 357348002662 active site 357348002663 arginine decarboxylase; Provisional; Region: PRK15029 357348002664 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 357348002665 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 357348002666 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348002667 catalytic residue [active] 357348002668 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 357348002669 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 357348002670 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 357348002671 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 357348002672 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348002673 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 357348002674 motif II; other site 357348002675 argininosuccinate lyase; Provisional; Region: PRK00855 357348002676 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 357348002677 active sites [active] 357348002678 tetramer interface [polypeptide binding]; other site 357348002679 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 357348002680 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 357348002681 PapC C-terminal domain; Region: PapC_C; pfam13953 357348002682 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 357348002683 Spore Coat Protein U domain; Region: SCPU; cl02253 357348002684 Spore Coat Protein U domain; Region: SCPU; cl02253 357348002685 Spore Coat Protein U domain; Region: SCPU; cl02253 357348002686 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 357348002687 Methyltransferase domain; Region: Methyltransf_31; pfam13847 357348002688 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 357348002689 S-adenosylmethionine binding site [chemical binding]; other site 357348002690 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348002691 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 357348002692 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 357348002693 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 357348002694 domain interfaces; other site 357348002695 active site 357348002696 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 357348002697 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 357348002698 active site 357348002699 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 357348002700 hemY protein; Region: hemY_coli; TIGR00540 357348002701 HemY protein N-terminus; Region: HemY_N; pfam07219 357348002702 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 357348002703 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 357348002704 putative substrate translocation pore; other site 357348002705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348002706 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 357348002707 NAD(P) binding site [chemical binding]; other site 357348002708 active site 357348002709 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348002710 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 357348002711 NAD(P) binding site [chemical binding]; other site 357348002712 catalytic residues [active] 357348002713 catalytic residues [active] 357348002714 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 357348002715 dimer interface [polypeptide binding]; other site 357348002716 substrate binding site [chemical binding]; other site 357348002717 metal binding sites [ion binding]; metal-binding site 357348002718 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 357348002719 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348002720 Protein of unknown function, DUF482; Region: DUF482; pfam04339 357348002721 NAD synthetase; Provisional; Region: PRK13981 357348002722 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 357348002723 multimer interface [polypeptide binding]; other site 357348002724 active site 357348002725 catalytic triad [active] 357348002726 protein interface 1 [polypeptide binding]; other site 357348002727 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 357348002728 homodimer interface [polypeptide binding]; other site 357348002729 NAD binding pocket [chemical binding]; other site 357348002730 ATP binding pocket [chemical binding]; other site 357348002731 Mg binding site [ion binding]; other site 357348002732 active-site loop [active] 357348002733 Nitrogen regulatory protein P-II; Region: P-II; cl00412 357348002734 Nitrogen regulatory protein P-II; Region: P-II; smart00938 357348002735 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348002736 trimer interface [polypeptide binding]; other site 357348002737 eyelet of channel; other site 357348002738 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 357348002739 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 357348002740 Walker A/P-loop; other site 357348002741 ATP binding site [chemical binding]; other site 357348002742 Q-loop/lid; other site 357348002743 ABC transporter signature motif; other site 357348002744 Walker B; other site 357348002745 D-loop; other site 357348002746 H-loop/switch region; other site 357348002747 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 357348002748 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 357348002749 dimer interface [polypeptide binding]; other site 357348002750 conserved gate region; other site 357348002751 putative PBP binding loops; other site 357348002752 ABC-ATPase subunit interface; other site 357348002753 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 357348002754 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 357348002755 dimer interface [polypeptide binding]; other site 357348002756 conserved gate region; other site 357348002757 putative PBP binding loops; other site 357348002758 ABC-ATPase subunit interface; other site 357348002759 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 357348002760 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 357348002761 substrate binding pocket [chemical binding]; other site 357348002762 membrane-bound complex binding site; other site 357348002763 hinge residues; other site 357348002764 Pirin-related protein [General function prediction only]; Region: COG1741 357348002765 Cupin domain; Region: Cupin_2; cl09118 357348002766 osmolarity response regulator; Provisional; Region: ompR; PRK09468 357348002767 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 357348002768 active site 357348002769 phosphorylation site [posttranslational modification] 357348002770 intermolecular recognition site; other site 357348002771 dimerization interface [polypeptide binding]; other site 357348002772 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 357348002773 DNA binding site [nucleotide binding] 357348002774 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 357348002775 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 357348002776 dimer interface [polypeptide binding]; other site 357348002777 phosphorylation site [posttranslational modification] 357348002778 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 357348002779 ATP binding site [chemical binding]; other site 357348002780 Mg2+ binding site [ion binding]; other site 357348002781 G-X-G motif; other site 357348002782 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 357348002783 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 357348002784 dimer interface [polypeptide binding]; other site 357348002785 conserved gate region; other site 357348002786 putative PBP binding loops; other site 357348002787 ABC-ATPase subunit interface; other site 357348002788 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 357348002789 dimer interface [polypeptide binding]; other site 357348002790 conserved gate region; other site 357348002791 putative PBP binding loops; other site 357348002792 ABC-ATPase subunit interface; other site 357348002793 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 357348002794 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 357348002795 Walker A/P-loop; other site 357348002796 ATP binding site [chemical binding]; other site 357348002797 Q-loop/lid; other site 357348002798 ABC transporter signature motif; other site 357348002799 Walker B; other site 357348002800 D-loop; other site 357348002801 H-loop/switch region; other site 357348002802 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 357348002803 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 357348002804 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 357348002805 active site 357348002806 homotetramer interface [polypeptide binding]; other site 357348002807 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348002808 AAA domain; Region: AAA_28; pfam13521 357348002809 Transposase domain (DUF772); Region: DUF772; pfam05598 357348002810 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 357348002811 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 357348002812 Major Facilitator Superfamily; Region: MFS_1; pfam07690 357348002813 putative substrate translocation pore; other site 357348002814 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 357348002815 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 357348002816 substrate binding site [chemical binding]; other site 357348002817 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 357348002818 secondary substrate binding site; other site 357348002819 primary substrate binding site; other site 357348002820 inhibition loop; other site 357348002821 dimerization interface [polypeptide binding]; other site 357348002822 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 357348002823 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348002824 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 357348002825 haemagglutination activity domain; Region: Haemagg_act; cl05436 357348002826 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 357348002827 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 357348002828 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 357348002829 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 357348002830 Immunity protein Imm2; Region: Imm2; pfam14426 357348002831 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 357348002832 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348002833 Surface antigen; Region: Bac_surface_Ag; cl03097 357348002834 putative transposase OrfB; Reviewed; Region: PHA02517 357348002835 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 357348002836 rRNA binding site [nucleotide binding]; other site 357348002837 predicted 30S ribosome binding site; other site 357348002838 short chain dehydrogenase; Validated; Region: PRK05855 357348002839 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 357348002840 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 357348002841 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 357348002842 Rubredoxin; Region: Rubredoxin; pfam00301 357348002843 iron binding site [ion binding]; other site 357348002844 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 357348002845 ABC transporter ATPase component; Reviewed; Region: PRK11147 357348002846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348002847 Walker A/P-loop; other site 357348002848 ATP binding site [chemical binding]; other site 357348002849 Q-loop/lid; other site 357348002850 ABC transporter signature motif; other site 357348002851 Walker B; other site 357348002852 D-loop; other site 357348002853 H-loop/switch region; other site 357348002854 ABC transporter; Region: ABC_tran_2; pfam12848 357348002855 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 357348002856 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 357348002857 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 357348002858 ATP binding site [chemical binding]; other site 357348002859 Mg2+ binding site [ion binding]; other site 357348002860 G-X-G motif; other site 357348002861 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 357348002862 anchoring element; other site 357348002863 dimer interface [polypeptide binding]; other site 357348002864 ATP binding site [chemical binding]; other site 357348002865 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 357348002866 active site 357348002867 metal binding site [ion binding]; metal-binding site 357348002868 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 357348002869 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 357348002870 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 357348002871 CAP-like domain; other site 357348002872 active site 357348002873 primary dimer interface [polypeptide binding]; other site 357348002874 Copper resistance protein D; Region: CopD; cl00563 357348002875 Helix-turn-helix domains; Region: HTH; cl00088 357348002876 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348002877 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 357348002878 dimerization interface [polypeptide binding]; other site 357348002879 Predicted membrane protein [Function unknown]; Region: COG4125 357348002880 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 357348002881 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 357348002882 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348002883 Helix-turn-helix domains; Region: HTH; cl00088 357348002884 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 357348002885 dimerization interface [polypeptide binding]; other site 357348002886 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348002887 allantoate amidohydrolase; Reviewed; Region: PRK12893 357348002888 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 357348002889 active site 357348002890 metal binding site [ion binding]; metal-binding site 357348002891 dimer interface [polypeptide binding]; other site 357348002892 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 357348002893 Chromate transporter; Region: Chromate_transp; pfam02417 357348002894 Chromate transporter; Region: Chromate_transp; pfam02417 357348002895 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 357348002896 metal binding site [ion binding]; metal-binding site 357348002897 active site 357348002898 I-site; other site 357348002899 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 357348002900 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 357348002901 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 357348002902 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 357348002903 homotrimer interaction site [polypeptide binding]; other site 357348002904 putative active site [active] 357348002905 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 357348002906 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 357348002907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348002908 homodimer interface [polypeptide binding]; other site 357348002909 catalytic residue [active] 357348002910 EamA-like transporter family; Region: EamA; cl01037 357348002911 EamA-like transporter family; Region: EamA; cl01037 357348002912 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 357348002913 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 357348002914 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348002915 DNA-binding site [nucleotide binding]; DNA binding site 357348002916 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 357348002917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348002918 homodimer interface [polypeptide binding]; other site 357348002919 catalytic residue [active] 357348002920 heat shock protein 90; Provisional; Region: PRK05218 357348002921 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 357348002922 ATP binding site [chemical binding]; other site 357348002923 Mg2+ binding site [ion binding]; other site 357348002924 G-X-G motif; other site 357348002925 UTRA domain; Region: UTRA; cl01230 357348002926 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 357348002927 putative active site [active] 357348002928 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348002929 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 357348002930 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 357348002931 Na binding site [ion binding]; other site 357348002932 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 357348002933 dimer interface [polypeptide binding]; other site 357348002934 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348002935 transaldolase-like protein; Provisional; Region: PTZ00411 357348002936 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 357348002937 active site 357348002938 dimer interface [polypeptide binding]; other site 357348002939 catalytic residue [active] 357348002940 Benzoate membrane transport protein; Region: BenE; pfam03594 357348002941 benzoate transporter; Region: benE; TIGR00843 357348002942 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 357348002943 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 357348002944 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 357348002945 Walker A motif; other site 357348002946 ATP binding site [chemical binding]; other site 357348002947 Walker B motif; other site 357348002948 arginine finger; other site 357348002949 Cytochrome c; Region: Cytochrom_C; cl11414 357348002950 Cytochrome c; Region: Cytochrom_C; cl11414 357348002951 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 357348002952 EamA-like transporter family; Region: EamA; cl01037 357348002953 endonuclease III; Provisional; Region: PRK10702 357348002954 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 357348002955 minor groove reading motif; other site 357348002956 helix-hairpin-helix signature motif; other site 357348002957 substrate binding pocket [chemical binding]; other site 357348002958 active site 357348002959 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 357348002960 ferredoxin; Provisional; Region: PRK06991 357348002961 Putative Fe-S cluster; Region: FeS; pfam04060 357348002962 4Fe-4S binding domain; Region: Fer4; cl02805 357348002963 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 357348002964 Helix-turn-helix domains; Region: HTH; cl00088 357348002965 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 357348002966 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 357348002967 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 357348002968 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 357348002969 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 357348002970 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 357348002971 envelope glycoprotein C; Provisional; Region: PHA03269 357348002972 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348002973 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 357348002974 META domain; Region: META; cl01245 357348002975 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 357348002976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348002977 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348002978 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 357348002979 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 357348002980 DEAD-like helicases superfamily; Region: DEXDc; smart00487 357348002981 ATP binding site [chemical binding]; other site 357348002982 Mg++ binding site [ion binding]; other site 357348002983 motif III; other site 357348002984 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 357348002985 nucleotide binding region [chemical binding]; other site 357348002986 ATP-binding site [chemical binding]; other site 357348002987 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348002988 active site 357348002989 HIGH motif; other site 357348002990 nucleotide binding site [chemical binding]; other site 357348002991 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348002992 KMSKS motif; other site 357348002993 rhodanese superfamily protein; Provisional; Region: PRK05320 357348002994 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 357348002995 active site residue [active] 357348002996 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 357348002997 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 357348002998 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 357348002999 generic binding surface II; other site 357348003000 generic binding surface I; other site 357348003001 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 357348003002 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 357348003003 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 357348003004 Walker A/P-loop; other site 357348003005 ATP binding site [chemical binding]; other site 357348003006 Q-loop/lid; other site 357348003007 ABC transporter signature motif; other site 357348003008 Walker B; other site 357348003009 D-loop; other site 357348003010 H-loop/switch region; other site 357348003011 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 357348003012 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 357348003013 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 357348003014 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 357348003015 putative active site [active] 357348003016 O-Antigen ligase; Region: Wzy_C; cl04850 357348003017 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 357348003018 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 357348003019 putative ADP-binding pocket [chemical binding]; other site 357348003020 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 357348003021 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 357348003022 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 357348003023 putative active site [active] 357348003024 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 357348003025 putative metal binding site; other site 357348003026 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 357348003027 Major Facilitator Superfamily; Region: MFS_1; pfam07690 357348003028 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 357348003029 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 357348003030 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348003031 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 357348003032 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 357348003033 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 357348003034 Pectinacetylesterase; Region: PAE; pfam03283 357348003035 xanthine permease; Region: pbuX; TIGR03173 357348003036 ribonuclease G; Provisional; Region: PRK11712 357348003037 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 357348003038 homodimer interface [polypeptide binding]; other site 357348003039 oligonucleotide binding site [chemical binding]; other site 357348003040 Maf-like protein; Region: Maf; pfam02545 357348003041 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 357348003042 active site 357348003043 dimer interface [polypeptide binding]; other site 357348003044 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 357348003045 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 357348003046 Oligomerisation domain; Region: Oligomerisation; cl00519 357348003047 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 357348003048 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 357348003049 active site 357348003050 (T/H)XGH motif; other site 357348003051 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 357348003052 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 357348003053 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 357348003054 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348003055 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 357348003056 Transcriptional regulator; Region: Transcrip_reg; cl00361 357348003057 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 357348003058 active site 357348003059 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 357348003060 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 357348003061 putative NAD(P) binding site [chemical binding]; other site 357348003062 putative active site [active] 357348003063 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 357348003064 active site 357348003065 dimer interfaces [polypeptide binding]; other site 357348003066 catalytic residues [active] 357348003067 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 357348003068 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 357348003069 NADP binding site [chemical binding]; other site 357348003070 dimer interface [polypeptide binding]; other site 357348003071 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 357348003072 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 357348003073 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 357348003074 K+-transporting ATPase, c chain; Region: KdpC; cl00944 357348003075 sensor protein KdpD; Provisional; Region: PRK10490 357348003076 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 357348003077 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 357348003078 Ligand Binding Site [chemical binding]; other site 357348003079 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 357348003080 GAF domain; Region: GAF; cl15785 357348003081 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 357348003082 dimer interface [polypeptide binding]; other site 357348003083 phosphorylation site [posttranslational modification] 357348003084 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 357348003085 ATP binding site [chemical binding]; other site 357348003086 Mg2+ binding site [ion binding]; other site 357348003087 G-X-G motif; other site 357348003088 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 357348003089 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 357348003090 active site 357348003091 phosphorylation site [posttranslational modification] 357348003092 intermolecular recognition site; other site 357348003093 dimerization interface [polypeptide binding]; other site 357348003094 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 357348003095 DNA binding site [nucleotide binding] 357348003096 Domain of unknown function (DUF333); Region: DUF333; pfam03891 357348003097 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 357348003098 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 357348003099 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 357348003100 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 357348003101 FtsX-like permease family; Region: FtsX; cl15850 357348003102 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 357348003103 apolar tunnel; other site 357348003104 heme binding site [chemical binding]; other site 357348003105 dimerization interface [polypeptide binding]; other site 357348003106 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 357348003107 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 357348003108 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 357348003109 amidase; Provisional; Region: PRK07042 357348003110 Amidase; Region: Amidase; cl11426 357348003111 citrate-proton symporter; Provisional; Region: PRK15075 357348003112 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 357348003113 short chain dehydrogenase; Provisional; Region: PRK06123 357348003114 classical (c) SDRs; Region: SDR_c; cd05233 357348003115 NAD(P) binding site [chemical binding]; other site 357348003116 active site 357348003117 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 357348003118 Helix-turn-helix domains; Region: HTH; cl00088 357348003119 Bacterial transcriptional repressor; Region: TetR; pfam13972 357348003120 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 357348003121 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 357348003122 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 357348003123 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 357348003124 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 357348003125 putative active site [active] 357348003126 putative metal binding site [ion binding]; other site 357348003127 RDD family; Region: RDD; cl00746 357348003128 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 357348003129 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 357348003130 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348003131 RNA polymerase factor sigma-70; Validated; Region: PRK09047 357348003132 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 357348003133 DNA binding residues [nucleotide binding] 357348003134 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 357348003135 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 357348003136 PYR/PP interface [polypeptide binding]; other site 357348003137 dimer interface [polypeptide binding]; other site 357348003138 TPP binding site [chemical binding]; other site 357348003139 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 357348003140 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 357348003141 TPP-binding site [chemical binding]; other site 357348003142 dimer interface [polypeptide binding]; other site 357348003143 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 357348003144 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 357348003145 putative valine binding site [chemical binding]; other site 357348003146 dimer interface [polypeptide binding]; other site 357348003147 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 357348003148 ketol-acid reductoisomerase; Provisional; Region: PRK05479 357348003149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348003150 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 357348003151 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 357348003152 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 357348003153 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 357348003154 2-isopropylmalate synthase; Validated; Region: PRK00915 357348003155 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 357348003156 active site 357348003157 catalytic residues [active] 357348003158 metal binding site [ion binding]; metal-binding site 357348003159 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 357348003160 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 357348003161 Sulfate transporter family; Region: Sulfate_transp; cl15842 357348003162 Sulfate transporter family; Region: Sulfate_transp; cl15842 357348003163 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 357348003164 active site clefts [active] 357348003165 zinc binding site [ion binding]; other site 357348003166 dimer interface [polypeptide binding]; other site 357348003167 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 357348003168 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 357348003169 putative ligand binding site [chemical binding]; other site 357348003170 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 357348003171 16S/18S rRNA binding site [nucleotide binding]; other site 357348003172 S13e-L30e interaction site [polypeptide binding]; other site 357348003173 25S rRNA binding site [nucleotide binding]; other site 357348003174 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 357348003175 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 357348003176 RNase E interface [polypeptide binding]; other site 357348003177 trimer interface [polypeptide binding]; other site 357348003178 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 357348003179 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 357348003180 RNase E interface [polypeptide binding]; other site 357348003181 trimer interface [polypeptide binding]; other site 357348003182 active site 357348003183 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 357348003184 putative nucleic acid binding region [nucleotide binding]; other site 357348003185 G-X-X-G motif; other site 357348003186 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 357348003187 RNA binding site [nucleotide binding]; other site 357348003188 domain interface; other site 357348003189 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 357348003190 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 357348003191 NAD(P) binding site [chemical binding]; other site 357348003192 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 357348003193 substrate binding site [chemical binding]; other site 357348003194 dimer interface [polypeptide binding]; other site 357348003195 catalytic triad [active] 357348003196 Preprotein translocase SecG subunit; Region: SecG; cl09123 357348003197 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 357348003198 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 357348003199 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 357348003200 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 357348003201 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 357348003202 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 357348003203 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 357348003204 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 357348003205 putative dimer interface [polypeptide binding]; other site 357348003206 [2Fe-2S] cluster binding site [ion binding]; other site 357348003207 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 357348003208 SLBB domain; Region: SLBB; pfam10531 357348003209 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 357348003210 NADH dehydrogenase subunit G; Validated; Region: PRK09129 357348003211 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 357348003212 catalytic loop [active] 357348003213 iron binding site [ion binding]; other site 357348003214 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 357348003215 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 357348003216 NADH dehydrogenase; Region: NADHdh; cl00469 357348003217 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 357348003218 4Fe-4S binding domain; Region: Fer4; cl02805 357348003219 4Fe-4S binding domain; Region: Fer4; cl02805 357348003220 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 357348003221 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 357348003222 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 357348003223 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 357348003224 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 357348003225 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 357348003226 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 357348003227 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 357348003228 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 357348003229 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 357348003230 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 357348003231 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 357348003232 dimer interface [polypeptide binding]; other site 357348003233 ADP-ribose binding site [chemical binding]; other site 357348003234 active site 357348003235 nudix motif; other site 357348003236 metal binding site [ion binding]; metal-binding site 357348003237 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 357348003238 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 357348003239 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 357348003240 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 357348003241 FAD binding site [chemical binding]; other site 357348003242 substrate binding site [chemical binding]; other site 357348003243 catalytic base [active] 357348003244 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 357348003245 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 357348003246 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 357348003247 active site 357348003248 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 357348003249 putative active site [active] 357348003250 putative catalytic site [active] 357348003251 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 357348003252 putative active site [active] 357348003253 putative catalytic site [active] 357348003254 Right handed beta helix region; Region: Beta_helix; pfam13229 357348003255 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348003256 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 357348003257 FAD binding site [chemical binding]; other site 357348003258 substrate binding site [chemical binding]; other site 357348003259 catalytic base [active] 357348003260 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 357348003261 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 357348003262 putative active site [active] 357348003263 putative substrate binding site [chemical binding]; other site 357348003264 ATP binding site [chemical binding]; other site 357348003265 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 357348003266 enoyl-CoA hydratase; Provisional; Region: PRK07511 357348003267 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348003268 substrate binding site [chemical binding]; other site 357348003269 oxyanion hole (OAH) forming residues; other site 357348003270 trimer interface [polypeptide binding]; other site 357348003271 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 357348003272 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 357348003273 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 357348003274 C-terminal domain interface [polypeptide binding]; other site 357348003275 GSH binding site (G-site) [chemical binding]; other site 357348003276 dimer interface [polypeptide binding]; other site 357348003277 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 357348003278 putative N-terminal domain interface [polypeptide binding]; other site 357348003279 putative dimer interface [polypeptide binding]; other site 357348003280 putative substrate binding pocket (H-site) [chemical binding]; other site 357348003281 methionine aminotransferase; Validated; Region: PRK09082 357348003282 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 357348003283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348003284 homodimer interface [polypeptide binding]; other site 357348003285 catalytic residue [active] 357348003286 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 357348003287 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 357348003288 Protein of unknown function (DUF328); Region: DUF328; cl01143 357348003289 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 357348003290 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 357348003291 putative active site [active] 357348003292 Zn binding site [ion binding]; other site 357348003293 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 357348003294 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348003295 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 357348003296 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 357348003297 DNA binding residues [nucleotide binding] 357348003298 dimerization interface [polypeptide binding]; other site 357348003299 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 357348003300 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 357348003301 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 357348003302 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 357348003303 active site 357348003304 Fatty acid desaturase; Region: FA_desaturase; pfam00487 357348003305 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 357348003306 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348003307 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348003308 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 357348003309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348003310 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 357348003311 L-serine binding site [chemical binding]; other site 357348003312 ACT domain interface; other site 357348003313 DDE superfamily endonuclease; Region: DDE_4; cl15789 357348003314 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 357348003315 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 357348003316 substrate binding pocket [chemical binding]; other site 357348003317 membrane-bound complex binding site; other site 357348003318 hinge residues; other site 357348003319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 357348003320 Histidine kinase; Region: HisKA_3; pfam07730 357348003321 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 357348003322 ATP binding site [chemical binding]; other site 357348003323 Mg2+ binding site [ion binding]; other site 357348003324 G-X-G motif; other site 357348003325 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 357348003326 catalytic motif [active] 357348003327 Catalytic residue [active] 357348003328 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 357348003329 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 357348003330 Cytochrome c; Region: Cytochrom_C; cl11414 357348003331 Cytochrome c; Region: Cytochrom_C; cl11414 357348003332 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 357348003333 Cytochrome c; Region: Cytochrom_C; cl11414 357348003334 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348003335 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 357348003336 Putative D-pathway homolog; other site 357348003337 Low-spin heme binding site [chemical binding]; other site 357348003338 Subunit I/II interface [polypeptide binding]; other site 357348003339 Putative Q-pathway; other site 357348003340 Putative alternate electron transfer pathway; other site 357348003341 Putative water exit pathway; other site 357348003342 Binuclear center (active site) [active] 357348003343 Putative K-pathway homolog; other site 357348003344 Putative proton exit pathway; other site 357348003345 Subunit I/IIa interface [polypeptide binding]; other site 357348003346 Electron transfer pathway; other site 357348003347 Cytochrome c; Region: Cytochrom_C; cl11414 357348003348 Cytochrome c; Region: Cytochrom_C; cl11414 357348003349 HDOD domain; Region: HDOD; pfam08668 357348003350 PAS domain; Region: PAS_9; pfam13426 357348003351 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 357348003352 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 357348003353 metal binding site [ion binding]; metal-binding site 357348003354 active site 357348003355 I-site; other site 357348003356 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 357348003357 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 357348003358 catalytic triad [active] 357348003359 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 357348003360 NADH(P)-binding; Region: NAD_binding_10; pfam13460 357348003361 NAD(P) binding site [chemical binding]; other site 357348003362 putative active site [active] 357348003363 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 357348003364 Protein export membrane protein; Region: SecD_SecF; cl14618 357348003365 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 357348003366 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 357348003367 Protein export membrane protein; Region: SecD_SecF; cl14618 357348003368 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 357348003369 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 357348003370 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 357348003371 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348003372 Helix-turn-helix domains; Region: HTH; cl00088 357348003373 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348003374 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 357348003375 Predicted transcriptional regulator [Transcription]; Region: COG1959 357348003376 Helix-turn-helix domains; Region: HTH; cl00088 357348003377 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 357348003378 NADH(P)-binding; Region: NAD_binding_10; pfam13460 357348003379 NAD binding site [chemical binding]; other site 357348003380 putative active site [active] 357348003381 substrate binding site [chemical binding]; other site 357348003382 Cysteine dioxygenase type I; Region: CDO_I; cl15835 357348003383 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348003384 Helix-turn-helix domains; Region: HTH; cl00088 357348003385 AsnC family; Region: AsnC_trans_reg; pfam01037 357348003386 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 357348003387 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 357348003388 Walker A/P-loop; other site 357348003389 ATP binding site [chemical binding]; other site 357348003390 Q-loop/lid; other site 357348003391 ABC transporter signature motif; other site 357348003392 Walker B; other site 357348003393 D-loop; other site 357348003394 H-loop/switch region; other site 357348003395 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 357348003396 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 357348003397 ABC-ATPase subunit interface; other site 357348003398 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 357348003399 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 357348003400 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 357348003401 putative proline-specific permease; Provisional; Region: proY; PRK10580 357348003402 Predicted membrane protein [Function unknown]; Region: COG1289 357348003403 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 357348003404 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 357348003405 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 357348003406 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 357348003407 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 357348003408 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 357348003409 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 357348003410 Family description; Region: UvrD_C_2; cl15862 357348003411 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 357348003412 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 357348003413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348003414 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 357348003415 Family description; Region: UvrD_C_2; cl15862 357348003416 RF-1 domain; Region: RF-1; cl02875 357348003417 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 357348003418 EamA-like transporter family; Region: EamA; cl01037 357348003419 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 357348003420 EamA-like transporter family; Region: EamA; cl01037 357348003421 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 357348003422 ThiC-associated domain; Region: ThiC-associated; pfam13667 357348003423 ThiC family; Region: ThiC; cl08031 357348003424 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 357348003425 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 357348003426 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 357348003427 Moco binding site; other site 357348003428 metal coordination site [ion binding]; other site 357348003429 EamA-like transporter family; Region: EamA; cl01037 357348003430 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 357348003431 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 357348003432 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 357348003433 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 357348003434 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 357348003435 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 357348003436 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 357348003437 active site 357348003438 metal binding site [ion binding]; metal-binding site 357348003439 hexamer interface [polypeptide binding]; other site 357348003440 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 357348003441 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348003442 Walker A/P-loop; other site 357348003443 ATP binding site [chemical binding]; other site 357348003444 Q-loop/lid; other site 357348003445 ABC transporter signature motif; other site 357348003446 Walker B; other site 357348003447 D-loop; other site 357348003448 H-loop/switch region; other site 357348003449 TOBE domain; Region: TOBE_2; cl01440 357348003450 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 357348003451 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 357348003452 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 357348003453 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 357348003454 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 357348003455 Transcriptional regulators [Transcription]; Region: PurR; COG1609 357348003456 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 357348003457 DNA binding site [nucleotide binding] 357348003458 domain linker motif; other site 357348003459 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 357348003460 putative dimerization interface [polypeptide binding]; other site 357348003461 putative ligand binding site [chemical binding]; other site 357348003462 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 357348003463 catalytic residue [active] 357348003464 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 357348003465 transposase; Provisional; Region: PRK06526 357348003466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348003467 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 357348003468 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 357348003469 integrase; Provisional; Region: PRK09692 357348003470 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 357348003471 active site 357348003472 Int/Topo IB signature motif; other site 357348003473 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 357348003474 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 357348003475 metal binding site [ion binding]; metal-binding site 357348003476 active site 357348003477 I-site; other site 357348003478 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 357348003479 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 357348003480 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 357348003481 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 357348003482 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 357348003483 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348003484 DNA-binding site [nucleotide binding]; DNA binding site 357348003485 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 357348003486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348003487 homodimer interface [polypeptide binding]; other site 357348003488 catalytic residue [active] 357348003489 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348003490 Helix-turn-helix domains; Region: HTH; cl00088 357348003491 AsnC family; Region: AsnC_trans_reg; pfam01037 357348003492 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 357348003493 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 357348003494 glutaminase active site [active] 357348003495 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 357348003496 dimer interface [polypeptide binding]; other site 357348003497 active site 357348003498 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 357348003499 dimer interface [polypeptide binding]; other site 357348003500 active site 357348003501 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 357348003502 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 357348003503 transcriptional regulator; Provisional; Region: PRK10632 357348003504 Helix-turn-helix domains; Region: HTH; cl00088 357348003505 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 357348003506 putative effector binding pocket; other site 357348003507 putative dimerization interface [polypeptide binding]; other site 357348003508 short chain dehydrogenase; Provisional; Region: PRK12744 357348003509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348003510 NAD(P) binding site [chemical binding]; other site 357348003511 active site 357348003512 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 357348003513 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 357348003514 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 357348003515 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 357348003516 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 357348003517 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 357348003518 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 357348003519 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348003520 DNA-binding site [nucleotide binding]; DNA binding site 357348003521 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 357348003522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348003523 homodimer interface [polypeptide binding]; other site 357348003524 catalytic residue [active] 357348003525 GSCFA family; Region: GSCFA; pfam08885 357348003526 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 357348003527 putative dimer interface [polypeptide binding]; other site 357348003528 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 357348003529 putative dimer interface [polypeptide binding]; other site 357348003530 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 357348003531 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 357348003532 active site 357348003533 substrate-binding site [chemical binding]; other site 357348003534 metal-binding site [ion binding] 357348003535 GTP binding site [chemical binding]; other site 357348003536 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 357348003537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348003538 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 357348003539 Helix-turn-helix domains; Region: HTH; cl00088 357348003540 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 357348003541 dimerization interface [polypeptide binding]; other site 357348003542 Malonate transporter MadL subunit; Region: MadL; cl04273 357348003543 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 357348003544 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 357348003545 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 357348003546 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 357348003547 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 357348003548 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 357348003549 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 357348003550 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 357348003551 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 357348003552 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 357348003553 Acyl transferase domain; Region: Acyl_transf_1; cl08282 357348003554 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 357348003555 putative active site [active] 357348003556 catalytic site [active] 357348003557 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 357348003558 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 357348003559 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 357348003560 N-terminal domain interface [polypeptide binding]; other site 357348003561 proline/glycine betaine transporter; Provisional; Region: PRK10642 357348003562 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 357348003563 putative substrate translocation pore; other site 357348003564 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 357348003565 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 357348003566 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 357348003567 active site 357348003568 catalytic site [active] 357348003569 substrate binding site [chemical binding]; other site 357348003570 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 357348003571 RNA/DNA hybrid binding site [nucleotide binding]; other site 357348003572 active site 357348003573 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348003574 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348003575 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 357348003576 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 357348003577 N-acetyl-D-glucosamine binding site [chemical binding]; other site 357348003578 catalytic residue [active] 357348003579 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 357348003580 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 357348003581 Major Facilitator Superfamily; Region: MFS_1; pfam07690 357348003582 putative substrate translocation pore; other site 357348003583 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 357348003584 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348003585 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348003586 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 357348003587 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 357348003588 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 357348003589 catalytic site [active] 357348003590 subunit interface [polypeptide binding]; other site 357348003591 LysE type translocator; Region: LysE; cl00565 357348003592 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 357348003593 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 357348003594 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348003595 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 357348003596 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 357348003597 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348003598 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 357348003599 IMP binding site; other site 357348003600 dimer interface [polypeptide binding]; other site 357348003601 interdomain contacts; other site 357348003602 partial ornithine binding site; other site 357348003603 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 357348003604 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 357348003605 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 357348003606 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 357348003607 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 357348003608 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348003609 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 357348003610 FtsH Extracellular; Region: FtsH_ext; pfam06480 357348003611 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 357348003612 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 357348003613 Walker A motif; other site 357348003614 ATP binding site [chemical binding]; other site 357348003615 Walker B motif; other site 357348003616 arginine finger; other site 357348003617 Peptidase family M41; Region: Peptidase_M41; pfam01434 357348003618 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 357348003619 dihydropteroate synthase; Region: DHPS; TIGR01496 357348003620 substrate binding pocket [chemical binding]; other site 357348003621 dimer interface [polypeptide binding]; other site 357348003622 inhibitor binding site; inhibition site 357348003623 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 357348003624 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 357348003625 active site 357348003626 substrate binding site [chemical binding]; other site 357348003627 metal binding site [ion binding]; metal-binding site 357348003628 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 357348003629 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 357348003630 dimer interface [polypeptide binding]; other site 357348003631 conserved gate region; other site 357348003632 putative PBP binding loops; other site 357348003633 ABC-ATPase subunit interface; other site 357348003634 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 357348003635 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 357348003636 dimer interface [polypeptide binding]; other site 357348003637 conserved gate region; other site 357348003638 putative PBP binding loops; other site 357348003639 ABC-ATPase subunit interface; other site 357348003640 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 357348003641 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 357348003642 Walker A/P-loop; other site 357348003643 ATP binding site [chemical binding]; other site 357348003644 Q-loop/lid; other site 357348003645 ABC transporter signature motif; other site 357348003646 Walker B; other site 357348003647 D-loop; other site 357348003648 H-loop/switch region; other site 357348003649 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 357348003650 PhoU domain; Region: PhoU; pfam01895 357348003651 PhoU domain; Region: PhoU; pfam01895 357348003652 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 357348003653 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 357348003654 active site 357348003655 phosphorylation site [posttranslational modification] 357348003656 intermolecular recognition site; other site 357348003657 dimerization interface [polypeptide binding]; other site 357348003658 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 357348003659 DNA binding site [nucleotide binding] 357348003660 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 357348003661 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 357348003662 dimer interface [polypeptide binding]; other site 357348003663 phosphorylation site [posttranslational modification] 357348003664 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 357348003665 ATP binding site [chemical binding]; other site 357348003666 Mg2+ binding site [ion binding]; other site 357348003667 G-X-G motif; other site 357348003668 polyphosphate kinase; Provisional; Region: PRK05443 357348003669 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 357348003670 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 357348003671 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 357348003672 putative active site [active] 357348003673 catalytic site [active] 357348003674 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 357348003675 putative domain interface [polypeptide binding]; other site 357348003676 putative active site [active] 357348003677 catalytic site [active] 357348003678 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 357348003679 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 357348003680 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 357348003681 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 357348003682 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 357348003683 catalytic core [active] 357348003684 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348003685 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 357348003686 MatE; Region: MatE; cl10513 357348003687 MatE; Region: MatE; cl10513 357348003688 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 357348003689 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 357348003690 AMP-binding enzyme; Region: AMP-binding; cl15778 357348003691 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348003692 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 357348003693 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 357348003694 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 357348003695 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 357348003696 active site 357348003697 catalytic residues [active] 357348003698 Bacitracin resistance protein BacA; Region: BacA; cl00858 357348003699 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 357348003700 DNA binding site [nucleotide binding] 357348003701 active site 357348003702 Int/Topo IB signature motif; other site 357348003703 HTH-like domain; Region: HTH_21; pfam13276 357348003704 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 357348003705 Integrase core domain; Region: rve; cl01316 357348003706 Integrase core domain; Region: rve_3; cl15866 357348003707 Helix-turn-helix domains; Region: HTH; cl00088 357348003708 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 357348003709 PAAR motif; Region: PAAR_motif; cl15808 357348003710 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 357348003711 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 357348003712 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 357348003713 Leucine carboxyl methyltransferase; Region: LCM; cl01306 357348003714 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 357348003715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348003716 homodimer interface [polypeptide binding]; other site 357348003717 catalytic residue [active] 357348003718 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 357348003719 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 357348003720 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 357348003721 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 357348003722 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 357348003723 active site 357348003724 catalytic site [active] 357348003725 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 357348003726 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 357348003727 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 357348003728 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 357348003729 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 357348003730 active site 357348003731 catalytic site [active] 357348003732 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 357348003733 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 357348003734 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 357348003735 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 357348003736 active site 357348003737 catalytic site [active] 357348003738 glycogen branching enzyme; Provisional; Region: PRK05402 357348003739 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 357348003740 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 357348003741 active site 357348003742 catalytic site [active] 357348003743 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 357348003744 trehalose synthase; Region: treS_nterm; TIGR02456 357348003745 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 357348003746 active site 357348003747 catalytic site [active] 357348003748 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 357348003749 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 357348003750 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 357348003751 active site 357348003752 homodimer interface [polypeptide binding]; other site 357348003753 catalytic site [active] 357348003754 acceptor binding site [chemical binding]; other site 357348003755 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 357348003756 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 357348003757 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 357348003758 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 357348003759 Interdomain contacts; other site 357348003760 Cytokine receptor motif; other site 357348003761 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 357348003762 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348003763 Helix-turn-helix domains; Region: HTH; cl00088 357348003764 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 357348003765 dimerization interface [polypeptide binding]; other site 357348003766 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 357348003767 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 357348003768 active site 357348003769 phosphorylation site [posttranslational modification] 357348003770 intermolecular recognition site; other site 357348003771 dimerization interface [polypeptide binding]; other site 357348003772 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 357348003773 DNA binding site [nucleotide binding] 357348003774 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 357348003775 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 357348003776 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 357348003777 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 357348003778 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 357348003779 active site 357348003780 phosphorylation site [posttranslational modification] 357348003781 intermolecular recognition site; other site 357348003782 dimerization interface [polypeptide binding]; other site 357348003783 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 357348003784 DNA binding site [nucleotide binding] 357348003785 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 357348003786 Haemagglutinin; Region: HIM; pfam05662 357348003787 YadA-like C-terminal region; Region: YadA; pfam03895 357348003788 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348003789 ligand binding site [chemical binding]; other site 357348003790 TPR repeat; Region: TPR_11; pfam13414 357348003791 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 357348003792 binding surface 357348003793 TPR motif; other site 357348003794 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 357348003795 H-NS histone family; Region: Histone_HNS; pfam00816 357348003796 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348003797 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 357348003798 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 357348003799 Cu(I) binding site [ion binding]; other site 357348003800 Ricin-type beta-trefoil; Region: RICIN; smart00458 357348003801 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; cd00161 357348003802 putative sugar binding sites [chemical binding]; other site 357348003803 Q-X-W motif; other site 357348003804 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 357348003805 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 357348003806 Galactose oxidase, central domain; Region: Kelch_3; cl02701 357348003807 Galactose oxidase, central domain; Region: Kelch_3; cl02701 357348003808 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 357348003809 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 357348003810 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 357348003811 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 357348003812 PAAR motif; Region: PAAR_motif; cl15808 357348003813 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348003814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 357348003815 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348003816 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 357348003817 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 357348003818 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 357348003819 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 357348003820 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 357348003821 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 357348003822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 357348003823 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348003824 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348003825 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 357348003826 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 357348003827 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 357348003828 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348003829 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348003830 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 357348003831 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 357348003832 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 357348003833 H-NS histone family; Region: Histone_HNS; pfam00816 357348003834 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348003835 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 357348003836 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 357348003837 active site 357348003838 benzoate transport; Region: 2A0115; TIGR00895 357348003839 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 357348003840 putative substrate translocation pore; other site 357348003841 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 357348003842 Helix-turn-helix domains; Region: HTH; cl00088 357348003843 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 357348003844 dimerization interface [polypeptide binding]; other site 357348003845 substrate binding pocket [chemical binding]; other site 357348003846 Spore Coat Protein U domain; Region: SCPU; cl02253 357348003847 Spore Coat Protein U domain; Region: SCPU; cl02253 357348003848 Spore Coat Protein U domain; Region: SCPU; cl02253 357348003849 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 357348003850 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 357348003851 PapC N-terminal domain; Region: PapC_N; pfam13954 357348003852 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 357348003853 PapC C-terminal domain; Region: PapC_C; pfam13953 357348003854 Spore Coat Protein U domain; Region: SCPU; cl02253 357348003855 Spore Coat Protein U domain; Region: SCPU; cl02253 357348003856 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 357348003857 dimer interface [polypeptide binding]; other site 357348003858 phosphorylation site [posttranslational modification] 357348003859 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 357348003860 ATP binding site [chemical binding]; other site 357348003861 Mg2+ binding site [ion binding]; other site 357348003862 G-X-G motif; other site 357348003863 Response regulator receiver domain; Region: Response_reg; pfam00072 357348003864 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 357348003865 active site 357348003866 phosphorylation site [posttranslational modification] 357348003867 intermolecular recognition site; other site 357348003868 dimerization interface [polypeptide binding]; other site 357348003869 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348003870 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 357348003871 active site 357348003872 phosphorylation site [posttranslational modification] 357348003873 intermolecular recognition site; other site 357348003874 dimerization interface [polypeptide binding]; other site 357348003875 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 357348003876 DNA binding residues [nucleotide binding] 357348003877 dimerization interface [polypeptide binding]; other site 357348003878 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 357348003879 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348003880 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 357348003881 putative substrate translocation pore; other site 357348003882 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 357348003883 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 357348003884 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 357348003885 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 357348003886 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 357348003887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348003888 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 357348003889 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 357348003890 Phosphoesterase family; Region: Phosphoesterase; cl15450 357348003891 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 357348003892 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 357348003893 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 357348003894 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 357348003895 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 357348003896 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 357348003897 nudix motif; other site 357348003898 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 357348003899 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348003900 active site 357348003901 HIGH motif; other site 357348003902 nucleotide binding site [chemical binding]; other site 357348003903 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 357348003904 KMSKS motif; other site 357348003905 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 357348003906 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 357348003907 CoA-transferase family III; Region: CoA_transf_3; pfam02515 357348003908 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 357348003909 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 357348003910 motif 1; other site 357348003911 active site 357348003912 motif 2; other site 357348003913 motif 3; other site 357348003914 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 357348003915 DHHA1 domain; Region: DHHA1; pfam02272 357348003916 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348003917 Helix-turn-helix domains; Region: HTH; cl00088 357348003918 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 357348003919 dimerization interface [polypeptide binding]; other site 357348003920 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 357348003921 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 357348003922 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 357348003923 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 357348003924 protein binding site [polypeptide binding]; other site 357348003925 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 357348003926 protein binding site [polypeptide binding]; other site 357348003927 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 357348003928 nudix motif; other site 357348003929 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 357348003930 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 357348003931 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 357348003932 putative active site [active] 357348003933 metal binding site [ion binding]; metal-binding site 357348003934 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 357348003935 active site 357348003936 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 357348003937 TM-ABC transporter signature motif; other site 357348003938 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 357348003939 TM-ABC transporter signature motif; other site 357348003940 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 357348003941 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 357348003942 Walker A/P-loop; other site 357348003943 ATP binding site [chemical binding]; other site 357348003944 Q-loop/lid; other site 357348003945 ABC transporter signature motif; other site 357348003946 Walker B; other site 357348003947 D-loop; other site 357348003948 H-loop/switch region; other site 357348003949 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 357348003950 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 357348003951 Walker A/P-loop; other site 357348003952 ATP binding site [chemical binding]; other site 357348003953 Q-loop/lid; other site 357348003954 ABC transporter signature motif; other site 357348003955 Walker B; other site 357348003956 D-loop; other site 357348003957 H-loop/switch region; other site 357348003958 KduI/IolB family; Region: KduI; cl01508 357348003959 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 357348003960 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 357348003961 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 357348003962 PYR/PP interface [polypeptide binding]; other site 357348003963 dimer interface [polypeptide binding]; other site 357348003964 TPP binding site [chemical binding]; other site 357348003965 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 357348003966 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 357348003967 TPP-binding site [chemical binding]; other site 357348003968 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 357348003969 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 357348003970 substrate binding site [chemical binding]; other site 357348003971 ATP binding site [chemical binding]; other site 357348003972 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 357348003973 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 357348003974 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 357348003975 Walker A/P-loop; other site 357348003976 ATP binding site [chemical binding]; other site 357348003977 Q-loop/lid; other site 357348003978 ABC transporter signature motif; other site 357348003979 Walker B; other site 357348003980 D-loop; other site 357348003981 H-loop/switch region; other site 357348003982 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 357348003983 TM-ABC transporter signature motif; other site 357348003984 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 357348003985 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 357348003986 putative ligand binding site [chemical binding]; other site 357348003987 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 357348003988 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 357348003989 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 357348003990 putative active site [active] 357348003991 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348003992 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 357348003993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348003994 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 357348003995 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 357348003996 CPxP motif; other site 357348003997 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 357348003998 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 357348003999 active site 357348004000 phosphorylation site [posttranslational modification] 357348004001 intermolecular recognition site; other site 357348004002 dimerization interface [polypeptide binding]; other site 357348004003 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 357348004004 DNA binding site [nucleotide binding] 357348004005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 357348004006 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 357348004007 FecR protein; Region: FecR; pfam04773 357348004008 CHASE2 domain; Region: CHASE2; cl01732 357348004009 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 357348004010 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 357348004011 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 357348004012 ATP binding site [chemical binding]; other site 357348004013 Mg2+ binding site [ion binding]; other site 357348004014 G-X-G motif; other site 357348004015 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 357348004016 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 357348004017 active site 357348004018 tetramer interface; other site 357348004019 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 357348004020 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 357348004021 HIGH motif; other site 357348004022 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 357348004023 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 357348004024 active site 357348004025 KMSKS motif; other site 357348004026 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 357348004027 tRNA binding surface [nucleotide binding]; other site 357348004028 anticodon binding site; other site 357348004029 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 357348004030 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 357348004031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348004032 Family description; Region: UvrD_C_2; cl15862 357348004033 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 357348004034 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 357348004035 putative substrate translocation pore; other site 357348004036 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 357348004037 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348004038 dimer interface [polypeptide binding]; other site 357348004039 putative CheW interface [polypeptide binding]; other site 357348004040 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 357348004041 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 357348004042 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 357348004043 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 357348004044 Fusaric acid resistance protein family; Region: FUSC; pfam04632 357348004045 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 357348004046 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 357348004047 transcriptional regulator; Provisional; Region: PRK10632 357348004048 Helix-turn-helix domains; Region: HTH; cl00088 357348004049 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348004050 putative effector binding pocket; other site 357348004051 dimerization interface [polypeptide binding]; other site 357348004052 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 357348004053 active site 357348004054 metal binding site [ion binding]; metal-binding site 357348004055 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 357348004056 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 357348004057 FAD binding domain; Region: FAD_binding_4; pfam01565 357348004058 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 357348004059 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 357348004060 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 357348004061 Protein of unknown function (DUF962); Region: DUF962; cl01879 357348004062 FOG: CBS domain [General function prediction only]; Region: COG0517 357348004063 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 357348004064 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 357348004065 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 357348004066 putative acyl-acceptor binding pocket; other site 357348004067 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 357348004068 Tetramer interface [polypeptide binding]; other site 357348004069 active site 357348004070 FMN-binding site [chemical binding]; other site 357348004071 putative transposase OrfB; Reviewed; Region: PHA02517 357348004072 HTH-like domain; Region: HTH_21; pfam13276 357348004073 Integrase core domain; Region: rve; cl01316 357348004074 Integrase core domain; Region: rve_3; cl15866 357348004075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348004076 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 357348004077 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 357348004078 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 357348004079 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 357348004080 classical (c) SDRs; Region: SDR_c; cd05233 357348004081 NAD(P) binding site [chemical binding]; other site 357348004082 active site 357348004083 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 357348004084 active site 357348004085 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 357348004086 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 357348004087 PAS domain; Region: PAS_9; pfam13426 357348004088 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 357348004089 DNA binding residues [nucleotide binding] 357348004090 dimerization interface [polypeptide binding]; other site 357348004091 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 357348004092 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 357348004093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348004094 NAD(P) binding site [chemical binding]; other site 357348004095 active site 357348004096 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 357348004097 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 357348004098 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 357348004099 Helix-turn-helix domains; Region: HTH; cl00088 357348004100 transcriptional activator TtdR; Provisional; Region: PRK09801 357348004101 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348004102 putative effector binding pocket; other site 357348004103 dimerization interface [polypeptide binding]; other site 357348004104 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 357348004105 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348004106 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 357348004107 homotrimer interaction site [polypeptide binding]; other site 357348004108 putative active site [active] 357348004109 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 357348004110 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 357348004111 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 357348004112 synthetase active site [active] 357348004113 NTP binding site [chemical binding]; other site 357348004114 metal binding site [ion binding]; metal-binding site 357348004115 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 357348004116 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 357348004117 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 357348004118 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 357348004119 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 357348004120 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 357348004121 active site 357348004122 dimer interface [polypeptide binding]; other site 357348004123 motif 1; other site 357348004124 motif 2; other site 357348004125 motif 3; other site 357348004126 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 357348004127 anticodon binding site; other site 357348004128 translation initiation factor IF-3; Region: infC; TIGR00168 357348004129 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 357348004130 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 357348004131 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 357348004132 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 357348004133 23S rRNA binding site [nucleotide binding]; other site 357348004134 L21 binding site [polypeptide binding]; other site 357348004135 L13 binding site [polypeptide binding]; other site 357348004136 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 357348004137 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 357348004138 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 357348004139 dimer interface [polypeptide binding]; other site 357348004140 motif 1; other site 357348004141 active site 357348004142 motif 2; other site 357348004143 motif 3; other site 357348004144 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 357348004145 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 357348004146 putative tRNA-binding site [nucleotide binding]; other site 357348004147 B3/4 domain; Region: B3_4; cl11458 357348004148 tRNA synthetase B5 domain; Region: B5; cl08394 357348004149 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 357348004150 dimer interface [polypeptide binding]; other site 357348004151 motif 1; other site 357348004152 motif 3; other site 357348004153 motif 2; other site 357348004154 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 357348004155 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 357348004156 IHF dimer interface [polypeptide binding]; other site 357348004157 IHF - DNA interface [nucleotide binding]; other site 357348004158 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 357348004159 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 357348004160 DNA binding residues [nucleotide binding] 357348004161 OpgC protein; Region: OpgC_C; cl00792 357348004162 Acyltransferase family; Region: Acyl_transf_3; pfam01757 357348004163 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 357348004164 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 357348004165 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 357348004166 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 357348004167 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 357348004168 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 357348004169 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 357348004170 putative active site [active] 357348004171 DDE superfamily endonuclease; Region: DDE_4; cl15789 357348004172 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 357348004173 Helix-turn-helix domains; Region: HTH; cl00088 357348004174 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 357348004175 putative dimerization interface [polypeptide binding]; other site 357348004176 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 357348004177 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 357348004178 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 357348004179 RNA binding surface [nucleotide binding]; other site 357348004180 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 357348004181 probable active site [active] 357348004182 ribosome maturation protein RimP; Reviewed; Region: PRK00092 357348004183 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 357348004184 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 357348004185 Sm1 motif; other site 357348004186 predicted subunit interaction site [polypeptide binding]; other site 357348004187 RNA binding pocket [nucleotide binding]; other site 357348004188 Sm2 motif; other site 357348004189 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 357348004190 NusA N-terminal domain; Region: NusA_N; pfam08529 357348004191 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 357348004192 RNA binding site [nucleotide binding]; other site 357348004193 homodimer interface [polypeptide binding]; other site 357348004194 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 357348004195 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 357348004196 G-X-X-G motif; other site 357348004197 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 357348004198 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 357348004199 translation initiation factor IF-2; Validated; Region: infB; PRK05306 357348004200 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 357348004201 translation initiation factor IF-2; Region: IF-2; TIGR00487 357348004202 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 357348004203 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 357348004204 G1 box; other site 357348004205 putative GEF interaction site [polypeptide binding]; other site 357348004206 GTP/Mg2+ binding site [chemical binding]; other site 357348004207 Switch I region; other site 357348004208 G2 box; other site 357348004209 G3 box; other site 357348004210 Switch II region; other site 357348004211 G4 box; other site 357348004212 G5 box; other site 357348004213 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 357348004214 Translation-initiation factor 2; Region: IF-2; pfam11987 357348004215 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 357348004216 Ribosome-binding factor A; Region: RBFA; cl00542 357348004217 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 357348004218 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 357348004219 RNA binding site [nucleotide binding]; other site 357348004220 active site 357348004221 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 357348004222 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348004223 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 357348004224 putative substrate translocation pore; other site 357348004225 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 357348004226 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 357348004227 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 357348004228 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 357348004229 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 357348004230 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 357348004231 Helix-turn-helix domains; Region: HTH; cl00088 357348004232 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 357348004233 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 357348004234 G1 box; other site 357348004235 putative GEF interaction site [polypeptide binding]; other site 357348004236 GTP/Mg2+ binding site [chemical binding]; other site 357348004237 Switch I region; other site 357348004238 G2 box; other site 357348004239 G3 box; other site 357348004240 Switch II region; other site 357348004241 G4 box; other site 357348004242 G5 box; other site 357348004243 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 357348004244 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 357348004245 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 357348004246 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 357348004247 TPP-binding site [chemical binding]; other site 357348004248 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 357348004249 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 357348004250 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 357348004251 E3 interaction surface; other site 357348004252 lipoyl attachment site [posttranslational modification]; other site 357348004253 e3 binding domain; Region: E3_binding; pfam02817 357348004254 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 357348004255 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 357348004256 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348004257 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 357348004258 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 357348004259 DDE superfamily endonuclease; Region: DDE_4; cl15789 357348004260 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 357348004261 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348004262 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 357348004263 Surface antigen; Region: Bac_surface_Ag; cl03097 357348004264 Flp/Fap pilin component; Region: Flp_Fap; cl01585 357348004265 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 357348004266 TadE-like protein; Region: TadE; cl10688 357348004267 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 357348004268 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 357348004269 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 357348004270 Response regulator receiver domain; Region: Response_reg; pfam00072 357348004271 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 357348004272 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 357348004273 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 357348004274 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 357348004275 ATP binding site [chemical binding]; other site 357348004276 Walker A motif; other site 357348004277 hexamer interface [polypeptide binding]; other site 357348004278 Walker B motif; other site 357348004279 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348004280 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348004281 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 357348004282 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 357348004283 binding surface 357348004284 TPR motif; other site 357348004285 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 357348004286 TadE-like protein; Region: TadE; cl10688 357348004287 Predicted membrane protein [Function unknown]; Region: COG4655 357348004288 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 357348004289 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 357348004290 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 357348004291 Walker A motif; other site 357348004292 ATP binding site [chemical binding]; other site 357348004293 Walker B motif; other site 357348004294 arginine finger; other site 357348004295 Helix-turn-helix domains; Region: HTH; cl00088 357348004296 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 357348004297 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 357348004298 Sm1 motif; other site 357348004299 D1 - D2 interaction site; other site 357348004300 D3 - B interaction site; other site 357348004301 Hfq - Hfq interaction site; other site 357348004302 RNA binding pocket [nucleotide binding]; other site 357348004303 Sm2 motif; other site 357348004304 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 357348004305 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 357348004306 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004307 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348004308 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 357348004309 Helix-turn-helix domains; Region: HTH; cl00088 357348004310 putative sialic acid transporter; Region: 2A0112; TIGR00891 357348004311 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 357348004312 putative substrate translocation pore; other site 357348004313 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 357348004314 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348004315 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 357348004316 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 357348004317 Sulfate transporter family; Region: Sulfate_transp; cl15842 357348004318 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 357348004319 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 357348004320 metal binding site [ion binding]; metal-binding site 357348004321 Phosphoesterase family; Region: Phosphoesterase; cl15450 357348004322 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348004323 dimer interface [polypeptide binding]; other site 357348004324 putative CheW interface [polypeptide binding]; other site 357348004325 ribonuclease R; Region: RNase_R; TIGR02063 357348004326 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 357348004327 RNB domain; Region: RNB; pfam00773 357348004328 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 357348004329 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 357348004330 RNA binding site [nucleotide binding]; other site 357348004331 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 357348004332 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 357348004333 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 357348004334 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 357348004335 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 357348004336 amidase catalytic site [active] 357348004337 Zn binding residues [ion binding]; other site 357348004338 substrate binding site [chemical binding]; other site 357348004339 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 357348004340 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 357348004341 tetramer (dimer of dimers) interface [polypeptide binding]; other site 357348004342 active site 357348004343 dimer interface [polypeptide binding]; other site 357348004344 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348004345 DNA-binding site [nucleotide binding]; DNA binding site 357348004346 FCD domain; Region: FCD; cl11656 357348004347 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 357348004348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348004349 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 357348004350 dimer interface [polypeptide binding]; other site 357348004351 conserved gate region; other site 357348004352 putative PBP binding loops; other site 357348004353 ABC-ATPase subunit interface; other site 357348004354 cystine transporter subunit; Provisional; Region: PRK11260 357348004355 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 357348004356 substrate binding pocket [chemical binding]; other site 357348004357 membrane-bound complex binding site; other site 357348004358 hinge residues; other site 357348004359 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 357348004360 quinone interaction residues [chemical binding]; other site 357348004361 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 357348004362 active site 357348004363 catalytic residues [active] 357348004364 FMN binding site [chemical binding]; other site 357348004365 substrate binding site [chemical binding]; other site 357348004366 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 357348004367 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 357348004368 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348004369 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348004370 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 357348004371 nudix motif; other site 357348004372 Domain of unknown function (DUF336); Region: DUF336; cl01249 357348004373 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 357348004374 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 357348004375 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348004376 substrate binding site [chemical binding]; other site 357348004377 oxyanion hole (OAH) forming residues; other site 357348004378 trimer interface [polypeptide binding]; other site 357348004379 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 357348004380 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 357348004381 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 357348004382 active site 357348004383 dimer interface [polypeptide binding]; other site 357348004384 non-prolyl cis peptide bond; other site 357348004385 insertion regions; other site 357348004386 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 357348004387 dimer interface [polypeptide binding]; other site 357348004388 conserved gate region; other site 357348004389 putative PBP binding loops; other site 357348004390 ABC-ATPase subunit interface; other site 357348004391 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 357348004392 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 357348004393 Walker A/P-loop; other site 357348004394 ATP binding site [chemical binding]; other site 357348004395 Q-loop/lid; other site 357348004396 ABC transporter signature motif; other site 357348004397 Walker B; other site 357348004398 D-loop; other site 357348004399 H-loop/switch region; other site 357348004400 TOBE domain; Region: TOBE_2; cl01440 357348004401 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 357348004402 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 357348004403 FMN binding site [chemical binding]; other site 357348004404 active site 357348004405 catalytic residues [active] 357348004406 substrate binding site [chemical binding]; other site 357348004407 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 357348004408 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 357348004409 Helix-turn-helix domains; Region: HTH; cl00088 357348004410 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 357348004411 CoenzymeA binding site [chemical binding]; other site 357348004412 subunit interaction site [polypeptide binding]; other site 357348004413 PHB binding site; other site 357348004414 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 357348004415 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 357348004416 active site 357348004417 catalytic tetrad [active] 357348004418 Predicted permease; Region: DUF318; pfam03773 357348004419 ABC-2 type transporter; Region: ABC2_membrane; cl11417 357348004420 nodulation ABC transporter NodI; Provisional; Region: PRK13537 357348004421 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 357348004422 Walker A/P-loop; other site 357348004423 ATP binding site [chemical binding]; other site 357348004424 Q-loop/lid; other site 357348004425 ABC transporter signature motif; other site 357348004426 Walker B; other site 357348004427 D-loop; other site 357348004428 H-loop/switch region; other site 357348004429 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 357348004430 Ligand Binding Site [chemical binding]; other site 357348004431 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 357348004432 LexA repressor; Validated; Region: PRK00215 357348004433 Helix-turn-helix domains; Region: HTH; cl00088 357348004434 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 357348004435 Catalytic site [active] 357348004436 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 357348004437 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 357348004438 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 357348004439 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 357348004440 dimer interface [polypeptide binding]; other site 357348004441 conserved gate region; other site 357348004442 putative PBP binding loops; other site 357348004443 ABC-ATPase subunit interface; other site 357348004444 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 357348004445 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 357348004446 Walker A/P-loop; other site 357348004447 ATP binding site [chemical binding]; other site 357348004448 Q-loop/lid; other site 357348004449 ABC transporter signature motif; other site 357348004450 Walker B; other site 357348004451 D-loop; other site 357348004452 H-loop/switch region; other site 357348004453 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 357348004454 Helix-turn-helix domains; Region: HTH; cl00088 357348004455 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 357348004456 substrate binding site [chemical binding]; other site 357348004457 dimerization interface [polypeptide binding]; other site 357348004458 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 357348004459 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 357348004460 ligand binding site [chemical binding]; other site 357348004461 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 357348004462 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 357348004463 Walker A/P-loop; other site 357348004464 ATP binding site [chemical binding]; other site 357348004465 Q-loop/lid; other site 357348004466 ABC transporter signature motif; other site 357348004467 Walker B; other site 357348004468 D-loop; other site 357348004469 H-loop/switch region; other site 357348004470 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 357348004471 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 357348004472 TM-ABC transporter signature motif; other site 357348004473 Transcriptional regulators [Transcription]; Region: PurR; COG1609 357348004474 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 357348004475 DNA binding site [nucleotide binding] 357348004476 domain linker motif; other site 357348004477 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 357348004478 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 357348004479 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 357348004480 substrate binding site [chemical binding]; other site 357348004481 dimer interface [polypeptide binding]; other site 357348004482 ATP binding site [chemical binding]; other site 357348004483 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 357348004484 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 357348004485 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 357348004486 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348004487 dimer interface [polypeptide binding]; other site 357348004488 putative CheW interface [polypeptide binding]; other site 357348004489 PrkA family serine protein kinase; Provisional; Region: PRK15455 357348004490 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348004491 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 357348004492 Uncharacterized conserved protein [Function unknown]; Region: COG2718 357348004493 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 357348004494 SpoVR family protein; Provisional; Region: PRK11767 357348004495 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 357348004496 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 357348004497 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 357348004498 putative substrate translocation pore; other site 357348004499 NMT1-like family; Region: NMT1_2; cl15260 357348004500 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 357348004501 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 357348004502 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 357348004503 Walker A/P-loop; other site 357348004504 ATP binding site [chemical binding]; other site 357348004505 Q-loop/lid; other site 357348004506 ABC transporter signature motif; other site 357348004507 Walker B; other site 357348004508 D-loop; other site 357348004509 H-loop/switch region; other site 357348004510 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 357348004511 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 357348004512 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 357348004513 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 357348004514 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 357348004515 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 357348004516 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 357348004517 active site 357348004518 phosphorylation site [posttranslational modification] 357348004519 intermolecular recognition site; other site 357348004520 dimerization interface [polypeptide binding]; other site 357348004521 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 357348004522 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348004523 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 357348004524 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 357348004525 ATP binding site [chemical binding]; other site 357348004526 Walker A motif; other site 357348004527 hexamer interface [polypeptide binding]; other site 357348004528 Walker B motif; other site 357348004529 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348004530 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348004531 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 357348004532 TadE-like protein; Region: TadE; cl10688 357348004533 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 357348004534 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 357348004535 substrate binding pocket [chemical binding]; other site 357348004536 membrane-bound complex binding site; other site 357348004537 hinge residues; other site 357348004538 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 357348004539 dimer interface [polypeptide binding]; other site 357348004540 conserved gate region; other site 357348004541 putative PBP binding loops; other site 357348004542 ABC-ATPase subunit interface; other site 357348004543 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 357348004544 dimer interface [polypeptide binding]; other site 357348004545 conserved gate region; other site 357348004546 putative PBP binding loops; other site 357348004547 ABC-ATPase subunit interface; other site 357348004548 Peptidase family M23; Region: Peptidase_M23; pfam01551 357348004549 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 357348004550 Helix-turn-helix domains; Region: HTH; cl00088 357348004551 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 357348004552 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 357348004553 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 357348004554 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 357348004555 multidrug efflux protein; Reviewed; Region: PRK09577 357348004556 Protein export membrane protein; Region: SecD_SecF; cl14618 357348004557 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 357348004558 Fimbrial protein; Region: Fimbrial; cl01416 357348004559 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 357348004560 PapC N-terminal domain; Region: PapC_N; pfam13954 357348004561 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 357348004562 PapC C-terminal domain; Region: PapC_C; pfam13953 357348004563 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 357348004564 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 357348004565 Fimbrial protein; Region: Fimbrial; cl01416 357348004566 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 357348004567 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348004568 Walker A/P-loop; other site 357348004569 ATP binding site [chemical binding]; other site 357348004570 Q-loop/lid; other site 357348004571 ABC transporter signature motif; other site 357348004572 Walker B; other site 357348004573 D-loop; other site 357348004574 H-loop/switch region; other site 357348004575 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 357348004576 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 357348004577 Ligand Binding Site [chemical binding]; other site 357348004578 Molecular Tunnel; other site 357348004579 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 357348004580 Cupin domain; Region: Cupin_2; cl09118 357348004581 Helix-turn-helix domain; Region: HTH_18; pfam12833 357348004582 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348004583 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 357348004584 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 357348004585 putative ligand binding site [chemical binding]; other site 357348004586 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 357348004587 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348004588 Walker A/P-loop; other site 357348004589 ATP binding site [chemical binding]; other site 357348004590 Q-loop/lid; other site 357348004591 ABC transporter signature motif; other site 357348004592 Walker B; other site 357348004593 D-loop; other site 357348004594 H-loop/switch region; other site 357348004595 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 357348004596 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 357348004597 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 357348004598 TM-ABC transporter signature motif; other site 357348004599 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 357348004600 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 357348004601 NAD(P) binding site [chemical binding]; other site 357348004602 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 357348004603 uncharacterized xylulose kinase-like proteins, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 357348004604 N- and C-terminal domain interface [polypeptide binding]; other site 357348004605 putative active site [active] 357348004606 catalytic site [active] 357348004607 metal binding site [ion binding]; metal-binding site 357348004608 putative xylulose binding site [chemical binding]; other site 357348004609 putative ATP binding site [chemical binding]; other site 357348004610 putative homodimer interface [polypeptide binding]; other site 357348004611 short chain dehydrogenase; Provisional; Region: PRK07060 357348004612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348004613 NAD(P) binding site [chemical binding]; other site 357348004614 active site 357348004615 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 357348004616 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348004617 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 357348004618 MbtH-like protein; Region: MbtH; cl01279 357348004619 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348004620 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 357348004621 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 357348004622 Walker A/P-loop; other site 357348004623 ATP binding site [chemical binding]; other site 357348004624 Q-loop/lid; other site 357348004625 ABC transporter signature motif; other site 357348004626 Walker B; other site 357348004627 D-loop; other site 357348004628 H-loop/switch region; other site 357348004629 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 357348004630 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 357348004631 ABC-ATPase subunit interface; other site 357348004632 dimer interface [polypeptide binding]; other site 357348004633 putative PBP binding regions; other site 357348004634 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 357348004635 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 357348004636 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 357348004637 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 357348004638 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 357348004639 siderophore binding site; other site 357348004640 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 357348004641 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 357348004642 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 357348004643 Walker A/P-loop; other site 357348004644 ATP binding site [chemical binding]; other site 357348004645 Q-loop/lid; other site 357348004646 ABC transporter signature motif; other site 357348004647 Walker B; other site 357348004648 D-loop; other site 357348004649 H-loop/switch region; other site 357348004650 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004651 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004652 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348004653 peptide synthase; Provisional; Region: PRK12467 357348004654 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348004655 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004656 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348004657 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 357348004658 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004659 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004660 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348004661 peptide synthase; Provisional; Region: PRK12467 357348004662 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348004663 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004664 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348004665 peptide synthase; Provisional; Region: PRK12467 357348004666 peptide synthase; Provisional; Region: PRK12467 357348004667 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348004668 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 357348004669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348004670 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 357348004671 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 357348004672 N-terminal plug; other site 357348004673 ligand-binding site [chemical binding]; other site 357348004674 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 357348004675 catalytic site [active] 357348004676 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 357348004677 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 357348004678 catalytic triad [active] 357348004679 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 357348004680 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 357348004681 homodimer interface [polypeptide binding]; other site 357348004682 Walker A motif; other site 357348004683 ATP binding site [chemical binding]; other site 357348004684 hydroxycobalamin binding site [chemical binding]; other site 357348004685 Walker B motif; other site 357348004686 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 357348004687 High-affinity nickel-transport protein; Region: NicO; cl00964 357348004688 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 357348004689 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348004690 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 357348004691 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 357348004692 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 357348004693 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 357348004694 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 357348004695 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 357348004696 Walker A motif; other site 357348004697 ATP binding site [chemical binding]; other site 357348004698 Walker B motif; other site 357348004699 arginine finger; other site 357348004700 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 357348004701 metal ion-dependent adhesion site (MIDAS); other site 357348004702 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 357348004703 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 357348004704 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 357348004705 active site 357348004706 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 357348004707 chitin/cellulose binding site [chemical binding]; other site 357348004708 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cd00036 357348004709 chitin/cellulose binding site [chemical binding]; other site 357348004710 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 357348004711 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 357348004712 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 357348004713 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 357348004714 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 357348004715 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 357348004716 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 357348004717 precorrin-3B synthase; Region: CobG; TIGR02435 357348004718 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 357348004719 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 357348004720 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 357348004721 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 357348004722 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348004723 CbiD; Region: CbiD; cl00828 357348004724 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 357348004725 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 357348004726 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 357348004727 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 357348004728 putative cyanate transporter; Provisional; Region: cynX; PRK09705 357348004729 Helix-turn-helix domains; Region: HTH; cl00088 357348004730 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 357348004731 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 357348004732 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 357348004733 dimerization interface [polypeptide binding]; other site 357348004734 ligand binding site [chemical binding]; other site 357348004735 Helix-turn-helix domains; Region: HTH; cl00088 357348004736 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 357348004737 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 357348004738 C-terminal domain interface [polypeptide binding]; other site 357348004739 GSH binding site (G-site) [chemical binding]; other site 357348004740 dimer interface [polypeptide binding]; other site 357348004741 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 357348004742 dimer interface [polypeptide binding]; other site 357348004743 N-terminal domain interface [polypeptide binding]; other site 357348004744 transcriptional regulator; Provisional; Region: PRK10632 357348004745 Helix-turn-helix domains; Region: HTH; cl00088 357348004746 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 357348004747 putative effector binding pocket; other site 357348004748 putative dimerization interface [polypeptide binding]; other site 357348004749 Domain of unknown function (DUF336); Region: DUF336; cl01249 357348004750 short chain dehydrogenase; Provisional; Region: PRK09291 357348004751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348004752 NAD(P) binding site [chemical binding]; other site 357348004753 active site 357348004754 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 357348004755 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 357348004756 putative substrate binding site [chemical binding]; other site 357348004757 nucleotide binding site [chemical binding]; other site 357348004758 nucleotide binding site [chemical binding]; other site 357348004759 homodimer interface [polypeptide binding]; other site 357348004760 ornithine carbamoyltransferase; Validated; Region: PRK02102 357348004761 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 357348004762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348004763 Amidinotransferase; Region: Amidinotransf; cl12043 357348004764 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 357348004765 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 357348004766 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 357348004767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348004768 Walker A/P-loop; other site 357348004769 ATP binding site [chemical binding]; other site 357348004770 Q-loop/lid; other site 357348004771 ABC transporter signature motif; other site 357348004772 Walker B; other site 357348004773 D-loop; other site 357348004774 H-loop/switch region; other site 357348004775 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 357348004776 NMT1-like family; Region: NMT1_2; cl15260 357348004777 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 357348004778 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 357348004779 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 357348004780 S-adenosylmethionine binding site [chemical binding]; other site 357348004781 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348004782 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 357348004783 putative substrate translocation pore; other site 357348004784 AMP-binding domain protein; Validated; Region: PRK07529 357348004785 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004786 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 357348004787 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348004788 dimer interface [polypeptide binding]; other site 357348004789 putative CheW interface [polypeptide binding]; other site 357348004790 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 357348004791 EamA-like transporter family; Region: EamA; cl01037 357348004792 Cupin domain; Region: Cupin_2; cl09118 357348004793 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348004794 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348004795 trimer interface [polypeptide binding]; other site 357348004796 eyelet of channel; other site 357348004797 peptide synthase; Provisional; Region: PRK12467 357348004798 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 357348004799 JmjC domain, hydroxylase; Region: JmjC; cl15814 357348004800 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 357348004801 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 357348004802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348004803 homodimer interface [polypeptide binding]; other site 357348004804 catalytic residue [active] 357348004805 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 357348004806 S-adenosylmethionine binding site [chemical binding]; other site 357348004807 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 357348004808 active site 357348004809 substrate binding site [chemical binding]; other site 357348004810 cosubstrate binding site; other site 357348004811 catalytic site [active] 357348004812 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 357348004813 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 357348004814 ANP binding site [chemical binding]; other site 357348004815 Substrate Binding Site II [chemical binding]; other site 357348004816 Substrate Binding Site I [chemical binding]; other site 357348004817 argininosuccinate lyase; Provisional; Region: PRK00855 357348004818 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 357348004819 active sites [active] 357348004820 tetramer interface [polypeptide binding]; other site 357348004821 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 357348004822 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 357348004823 putative substrate translocation pore; other site 357348004824 Major Facilitator Superfamily; Region: MFS_1; pfam07690 357348004825 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 357348004826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348004827 catalytic residue [active] 357348004828 dimer interface [polypeptide binding]; other site 357348004829 argininosuccinate lyase; Provisional; Region: PRK02186 357348004830 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348004831 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 357348004832 active sites [active] 357348004833 tetramer interface [polypeptide binding]; other site 357348004834 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 357348004835 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 357348004836 tetramer interface [polypeptide binding]; other site 357348004837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348004838 catalytic residue [active] 357348004839 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 357348004840 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348004841 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 357348004842 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004843 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348004844 peptide synthase; Provisional; Region: PRK12316 357348004845 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348004846 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004847 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348004848 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348004849 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004850 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004851 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348004852 peptide synthase; Provisional; Region: PRK12467 357348004853 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348004854 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004855 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348004856 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348004857 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004858 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348004859 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 357348004860 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348004861 AMP-binding enzyme; Region: AMP-binding; cl15778 357348004862 peptide synthase; Provisional; Region: PRK12467 357348004863 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348004864 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 357348004865 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 357348004866 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 357348004867 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 357348004868 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 357348004869 active site 357348004870 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 357348004871 Protein of unknown function (DUF692); Region: DUF692; cl01263 357348004872 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 357348004873 DoxX; Region: DoxX; cl00976 357348004874 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 357348004875 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 357348004876 RNA polymerase sigma factor; Provisional; Region: PRK12536 357348004877 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348004878 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 357348004879 DNA binding residues [nucleotide binding] 357348004880 Integrase core domain; Region: rve_3; cl15866 357348004881 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 357348004882 active site residue [active] 357348004883 allantoate amidohydrolase; Reviewed; Region: PRK12890 357348004884 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 357348004885 active site 357348004886 metal binding site [ion binding]; metal-binding site 357348004887 dimer interface [polypeptide binding]; other site 357348004888 allantoinase; Region: allantoinase; TIGR03178 357348004889 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 357348004890 active site 357348004891 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 357348004892 Helix-turn-helix domains; Region: HTH; cl00088 357348004893 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 357348004894 putative dimerization interface [polypeptide binding]; other site 357348004895 Uncharacterized conserved protein [Function unknown]; Region: COG3535 357348004896 Protein of unknown function (DUF917); Region: DUF917; pfam06032 357348004897 urocanate hydratase; Provisional; Region: PRK05414 357348004898 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348004899 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 357348004900 putative substrate translocation pore; other site 357348004901 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 357348004902 active sites [active] 357348004903 tetramer interface [polypeptide binding]; other site 357348004904 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 357348004905 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348004906 trimer interface [polypeptide binding]; other site 357348004907 eyelet of channel; other site 357348004908 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 357348004909 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 357348004910 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 357348004911 active site 357348004912 phosphorylation site [posttranslational modification] 357348004913 intermolecular recognition site; other site 357348004914 dimerization interface [polypeptide binding]; other site 357348004915 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 357348004916 DNA binding site [nucleotide binding] 357348004917 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 357348004918 ligand-binding site [chemical binding]; other site 357348004919 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 357348004920 TPR motif; other site 357348004921 binding surface 357348004922 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348004923 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 357348004924 TPR motif; other site 357348004925 binding surface 357348004926 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 357348004927 binding surface 357348004928 TPR motif; other site 357348004929 Tetratricopeptide repeat; Region: TPR_12; pfam13424 357348004930 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 357348004931 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 357348004932 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 357348004933 binding surface 357348004934 TPR motif; other site 357348004935 TPR repeat; Region: TPR_11; pfam13414 357348004936 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 357348004937 binding surface 357348004938 TPR motif; other site 357348004939 TPR repeat; Region: TPR_11; pfam13414 357348004940 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 357348004941 TPR motif; other site 357348004942 binding surface 357348004943 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 357348004944 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 357348004945 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 357348004946 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 357348004947 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 357348004948 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 357348004949 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 357348004950 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 357348004951 Walker A/P-loop; other site 357348004952 ATP binding site [chemical binding]; other site 357348004953 Q-loop/lid; other site 357348004954 ABC transporter signature motif; other site 357348004955 Walker B; other site 357348004956 D-loop; other site 357348004957 H-loop/switch region; other site 357348004958 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 357348004959 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 357348004960 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 357348004961 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 357348004962 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 357348004963 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 357348004964 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 357348004965 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 357348004966 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 357348004967 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 357348004968 Family description; Region: VCBS; pfam13517 357348004969 Family description; Region: VCBS; pfam13517 357348004970 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 357348004971 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 357348004972 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348004973 ligand binding site [chemical binding]; other site 357348004974 DDE superfamily endonuclease; Region: DDE_4; cl15789 357348004975 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 357348004976 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 357348004977 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 357348004978 active site flap/lid [active] 357348004979 nucleophilic elbow; other site 357348004980 catalytic triad [active] 357348004981 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 357348004982 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 357348004983 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 357348004984 dimer interface [polypeptide binding]; other site 357348004985 phosphorylation site [posttranslational modification] 357348004986 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 357348004987 ATP binding site [chemical binding]; other site 357348004988 Mg2+ binding site [ion binding]; other site 357348004989 G-X-G motif; other site 357348004990 Response regulator receiver domain; Region: Response_reg; pfam00072 357348004991 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 357348004992 active site 357348004993 phosphorylation site [posttranslational modification] 357348004994 intermolecular recognition site; other site 357348004995 dimerization interface [polypeptide binding]; other site 357348004996 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348004997 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 357348004998 active site 357348004999 phosphorylation site [posttranslational modification] 357348005000 intermolecular recognition site; other site 357348005001 dimerization interface [polypeptide binding]; other site 357348005002 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 357348005003 DNA binding residues [nucleotide binding] 357348005004 dimerization interface [polypeptide binding]; other site 357348005005 Haemagglutinin; Region: HIM; pfam05662 357348005006 YadA-like C-terminal region; Region: YadA; pfam03895 357348005007 Fimbrial protein; Region: Fimbrial; cl01416 357348005008 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 357348005009 PapC N-terminal domain; Region: PapC_N; pfam13954 357348005010 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 357348005011 PapC C-terminal domain; Region: PapC_C; pfam13953 357348005012 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 357348005013 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 357348005014 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 357348005015 Fimbrial protein; Region: Fimbrial; cl01416 357348005016 MEKHLA domain; Region: MEKHLA; pfam08670 357348005017 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 357348005018 putative alcohol dehydrogenase; Provisional; Region: PRK09860 357348005019 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 357348005020 dimer interface [polypeptide binding]; other site 357348005021 active site 357348005022 metal binding site [ion binding]; metal-binding site 357348005023 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 357348005024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348005025 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 357348005026 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 357348005027 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 357348005028 iron-sulfur cluster [ion binding]; other site 357348005029 [2Fe-2S] cluster binding site [ion binding]; other site 357348005030 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 357348005031 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 357348005032 dihydroxyacetone kinase; Provisional; Region: PRK14479 357348005033 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 357348005034 DAK2 domain; Region: Dak2; cl03685 357348005035 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 357348005036 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348005037 dimer interface [polypeptide binding]; other site 357348005038 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 357348005039 putative CheW interface [polypeptide binding]; other site 357348005040 ABC-2 type transporter; Region: ABC2_membrane; cl11417 357348005041 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 357348005042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005043 Walker A/P-loop; other site 357348005044 ATP binding site [chemical binding]; other site 357348005045 Q-loop/lid; other site 357348005046 ABC transporter signature motif; other site 357348005047 Walker B; other site 357348005048 D-loop; other site 357348005049 H-loop/switch region; other site 357348005050 ApbE family; Region: ApbE; cl00643 357348005051 nitrous-oxide reductase; Validated; Region: PRK02888 357348005052 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348005053 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 357348005054 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 357348005055 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 357348005056 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 357348005057 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005058 Walker A/P-loop; other site 357348005059 ATP binding site [chemical binding]; other site 357348005060 Q-loop/lid; other site 357348005061 ABC transporter signature motif; other site 357348005062 Walker B; other site 357348005063 D-loop; other site 357348005064 H-loop/switch region; other site 357348005065 ABC-2 type transporter; Region: ABC2_membrane; cl11417 357348005066 NosL; Region: NosL; cl01769 357348005067 Cytochrome c; Region: Cytochrom_C; cl11414 357348005068 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 357348005069 FMN-binding domain; Region: FMN_bind; cl01081 357348005070 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 357348005071 4Fe-4S binding domain; Region: Fer4_5; pfam12801 357348005072 4Fe-4S binding domain; Region: Fer4_5; pfam12801 357348005073 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 357348005074 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 357348005075 Mechanosensitive ion channel; Region: MS_channel; pfam00924 357348005076 YCII-related domain; Region: YCII; cl00999 357348005077 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 357348005078 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 357348005079 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 357348005080 AAA domain; Region: AAA_33; pfam13671 357348005081 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005082 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 357348005083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348005084 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 357348005085 Double zinc ribbon; Region: DZR; pfam12773 357348005086 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 357348005087 Helix-turn-helix domains; Region: HTH; cl00088 357348005088 AsnC family; Region: AsnC_trans_reg; pfam01037 357348005089 thioester reductase domain; Region: Thioester-redct; TIGR01746 357348005090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348005091 active site 357348005092 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 357348005093 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 357348005094 PGDYG protein; Region: PGDYG; pfam14083 357348005095 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 357348005096 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 357348005097 Transcriptional regulators [Transcription]; Region: PurR; COG1609 357348005098 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 357348005099 DNA binding site [nucleotide binding] 357348005100 domain linker motif; other site 357348005101 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 357348005102 putative ligand binding site [chemical binding]; other site 357348005103 putative dimerization interface [polypeptide binding]; other site 357348005104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348005105 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 357348005106 D-galactonate transporter; Region: 2A0114; TIGR00893 357348005107 putative substrate translocation pore; other site 357348005108 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 357348005109 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 357348005110 substrate binding site [chemical binding]; other site 357348005111 ATP binding site [chemical binding]; other site 357348005112 SdpI/YhfL protein family; Region: SdpI; pfam13630 357348005113 Helix-turn-helix domains; Region: HTH; cl00088 357348005114 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 357348005115 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 357348005116 dimerization interface [polypeptide binding]; other site 357348005117 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 357348005118 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 357348005119 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 357348005120 Cl- selectivity filter; other site 357348005121 Cl- binding residues [ion binding]; other site 357348005122 pore gating glutamate residue; other site 357348005123 dimer interface [polypeptide binding]; other site 357348005124 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 357348005125 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348005126 Helix-turn-helix domains; Region: HTH; cl00088 357348005127 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 357348005128 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 357348005129 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 357348005130 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 357348005131 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 357348005132 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 357348005133 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 357348005134 MerR, DNA binding; Region: MerR-DNA-bind; pfam09278 357348005135 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 357348005136 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 357348005137 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 357348005138 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 357348005139 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 357348005140 PAS fold; Region: PAS_4; pfam08448 357348005141 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 357348005142 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 357348005143 Walker A motif; other site 357348005144 ATP binding site [chemical binding]; other site 357348005145 Walker B motif; other site 357348005146 arginine finger; other site 357348005147 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 357348005148 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348005149 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 357348005150 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 357348005151 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 357348005152 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 357348005153 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 357348005154 dimer interface [polypeptide binding]; other site 357348005155 conserved gate region; other site 357348005156 putative PBP binding loops; other site 357348005157 ABC-ATPase subunit interface; other site 357348005158 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 357348005159 dimer interface [polypeptide binding]; other site 357348005160 conserved gate region; other site 357348005161 putative PBP binding loops; other site 357348005162 ABC-ATPase subunit interface; other site 357348005163 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 357348005164 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005165 Walker A/P-loop; other site 357348005166 ATP binding site [chemical binding]; other site 357348005167 Q-loop/lid; other site 357348005168 ABC transporter signature motif; other site 357348005169 Walker B; other site 357348005170 D-loop; other site 357348005171 H-loop/switch region; other site 357348005172 TOBE domain; Region: TOBE_2; cl01440 357348005173 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 357348005174 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 357348005175 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 357348005176 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 357348005177 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 357348005178 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 357348005179 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 357348005180 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 357348005181 FMN binding site [chemical binding]; other site 357348005182 substrate binding site [chemical binding]; other site 357348005183 putative catalytic residue [active] 357348005184 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 357348005185 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348005186 NAD binding site [chemical binding]; other site 357348005187 catalytic residues [active] 357348005188 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 357348005189 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005190 Walker A/P-loop; other site 357348005191 ATP binding site [chemical binding]; other site 357348005192 Q-loop/lid; other site 357348005193 ABC transporter signature motif; other site 357348005194 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 357348005195 Walker B; other site 357348005196 D-loop; other site 357348005197 H-loop/switch region; other site 357348005198 ABC transporter; Region: ABC_tran_2; pfam12848 357348005199 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 357348005200 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 357348005201 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 357348005202 AsmA-like C-terminal region; Region: AsmA_2; cl15864 357348005203 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 357348005204 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005205 Walker A/P-loop; other site 357348005206 ATP binding site [chemical binding]; other site 357348005207 Q-loop/lid; other site 357348005208 ABC transporter signature motif; other site 357348005209 Walker B; other site 357348005210 D-loop; other site 357348005211 H-loop/switch region; other site 357348005212 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 357348005213 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 357348005214 phosphoserine phosphatase SerB; Region: serB; TIGR00338 357348005215 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 357348005216 motif II; other site 357348005217 cystathionine beta-lyase; Provisional; Region: PRK07050 357348005218 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 357348005219 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348005220 catalytic residue [active] 357348005221 beta-ketothiolase; Provisional; Region: PRK09051 357348005222 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 357348005223 dimer interface [polypeptide binding]; other site 357348005224 active site 357348005225 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 357348005226 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 357348005227 substrate binding site [chemical binding]; other site 357348005228 ATP binding site [chemical binding]; other site 357348005229 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 357348005230 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 357348005231 TRAM domain; Region: TRAM; cl01282 357348005232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 357348005233 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 357348005234 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 357348005235 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 357348005236 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 357348005237 NAD(P) binding site [chemical binding]; other site 357348005238 homotetramer interface [polypeptide binding]; other site 357348005239 homodimer interface [polypeptide binding]; other site 357348005240 active site 357348005241 putative acyltransferase; Provisional; Region: PRK05790 357348005242 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 357348005243 dimer interface [polypeptide binding]; other site 357348005244 active site 357348005245 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 357348005246 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 357348005247 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 357348005248 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 357348005249 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 357348005250 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 357348005251 RNA binding surface [nucleotide binding]; other site 357348005252 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 357348005253 active site 357348005254 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 357348005255 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 357348005256 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005257 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005258 Protein of unknown function (DUF465); Region: DUF465; cl01070 357348005259 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 357348005260 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 357348005261 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 357348005262 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 357348005263 RNA binding site [nucleotide binding]; other site 357348005264 K+ potassium transporter; Region: K_trans; cl15781 357348005265 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 357348005266 active site 357348005267 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 357348005268 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 357348005269 GDP-binding site [chemical binding]; other site 357348005270 ACT binding site; other site 357348005271 IMP binding site; other site 357348005272 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 357348005273 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 357348005274 dimer interface [polypeptide binding]; other site 357348005275 motif 1; other site 357348005276 active site 357348005277 motif 2; other site 357348005278 motif 3; other site 357348005279 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 357348005280 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 357348005281 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 357348005282 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 357348005283 HflK protein; Region: hflK; TIGR01933 357348005284 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 357348005285 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 357348005286 HflX GTPase family; Region: HflX; cd01878 357348005287 G1 box; other site 357348005288 GTP/Mg2+ binding site [chemical binding]; other site 357348005289 Switch I region; other site 357348005290 G2 box; other site 357348005291 G3 box; other site 357348005292 Switch II region; other site 357348005293 G4 box; other site 357348005294 G5 box; other site 357348005295 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 357348005296 Sm1 motif; other site 357348005297 intra - hexamer interaction site; other site 357348005298 inter - hexamer interaction site [polypeptide binding]; other site 357348005299 nucleotide binding pocket [chemical binding]; other site 357348005300 Sm2 motif; other site 357348005301 GTP-binding protein Der; Reviewed; Region: PRK00093 357348005302 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 357348005303 G1 box; other site 357348005304 GTP/Mg2+ binding site [chemical binding]; other site 357348005305 Switch I region; other site 357348005306 G2 box; other site 357348005307 Switch II region; other site 357348005308 G3 box; other site 357348005309 G4 box; other site 357348005310 G5 box; other site 357348005311 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 357348005312 G1 box; other site 357348005313 GTP/Mg2+ binding site [chemical binding]; other site 357348005314 Switch I region; other site 357348005315 G2 box; other site 357348005316 G3 box; other site 357348005317 Switch II region; other site 357348005318 G4 box; other site 357348005319 G5 box; other site 357348005320 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 357348005321 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 357348005322 Trp docking motif [polypeptide binding]; other site 357348005323 active site 357348005324 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 357348005325 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 357348005326 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 357348005327 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 357348005328 dimer interface [polypeptide binding]; other site 357348005329 motif 1; other site 357348005330 active site 357348005331 motif 2; other site 357348005332 motif 3; other site 357348005333 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 357348005334 anticodon binding site; other site 357348005335 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 357348005336 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 357348005337 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 357348005338 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 357348005339 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 357348005340 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 357348005341 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 357348005342 FeS/SAM binding site; other site 357348005343 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 357348005344 active site 357348005345 multimer interface [polypeptide binding]; other site 357348005346 YccA-like proteins; Region: YccA_like; cd10433 357348005347 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 357348005348 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 357348005349 S-adenosylmethionine binding site [chemical binding]; other site 357348005350 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 357348005351 putative catalytic site [active] 357348005352 putative metal binding site [ion binding]; other site 357348005353 putative phosphate binding site [ion binding]; other site 357348005354 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 357348005355 putative catalytic site [active] 357348005356 putative phosphate binding site [ion binding]; other site 357348005357 putative metal binding site [ion binding]; other site 357348005358 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 357348005359 active site 357348005360 catalytic site [active] 357348005361 substrate binding site [chemical binding]; other site 357348005362 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 357348005363 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 357348005364 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 357348005365 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348005366 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 357348005367 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 357348005368 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 357348005369 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 357348005370 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 357348005371 S-adenosylmethionine binding site [chemical binding]; other site 357348005372 Survival protein SurE; Region: SurE; cl00448 357348005373 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 357348005374 CoA-transferase family III; Region: CoA_transf_3; pfam02515 357348005375 recombination protein RecR; Reviewed; Region: recR; PRK00076 357348005376 RecR protein; Region: RecR; pfam02132 357348005377 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 357348005378 putative active site [active] 357348005379 putative metal-binding site [ion binding]; other site 357348005380 tetramer interface [polypeptide binding]; other site 357348005381 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 357348005382 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 357348005383 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 357348005384 Walker A motif; other site 357348005385 ATP binding site [chemical binding]; other site 357348005386 Walker B motif; other site 357348005387 arginine finger; other site 357348005388 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 357348005389 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 357348005390 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 357348005391 catalytic residues [active] 357348005392 transcription termination factor Rho; Provisional; Region: rho; PRK09376 357348005393 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 357348005394 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 357348005395 RNA binding site [nucleotide binding]; other site 357348005396 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 357348005397 multimer interface [polypeptide binding]; other site 357348005398 Walker A motif; other site 357348005399 ATP binding site [chemical binding]; other site 357348005400 Walker B motif; other site 357348005401 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 357348005402 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 357348005403 DNA binding residues [nucleotide binding] 357348005404 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 357348005405 putative substrate translocation pore; other site 357348005406 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348005407 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 357348005408 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 357348005409 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 357348005410 putative efflux protein, MATE family; Region: matE; TIGR00797 357348005411 MatE; Region: MatE; cl10513 357348005412 MatE; Region: MatE; cl10513 357348005413 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 357348005414 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 357348005415 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 357348005416 DNA binding residues [nucleotide binding] 357348005417 putative dimer interface [polypeptide binding]; other site 357348005418 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 357348005419 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 357348005420 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 357348005421 Clp amino terminal domain; Region: Clp_N; pfam02861 357348005422 Clp amino terminal domain; Region: Clp_N; pfam02861 357348005423 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 357348005424 Walker A motif; other site 357348005425 ATP binding site [chemical binding]; other site 357348005426 Walker B motif; other site 357348005427 arginine finger; other site 357348005428 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 357348005429 Walker A motif; other site 357348005430 ATP binding site [chemical binding]; other site 357348005431 Walker B motif; other site 357348005432 arginine finger; other site 357348005433 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 357348005434 Helix-turn-helix domains; Region: HTH; cl00088 357348005435 Rrf2 family protein; Region: rrf2_super; TIGR00738 357348005436 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 357348005437 apolar tunnel; other site 357348005438 heme binding site [chemical binding]; other site 357348005439 dimerization interface [polypeptide binding]; other site 357348005440 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 357348005441 MoaE homodimer interface [polypeptide binding]; other site 357348005442 MoaD interaction [polypeptide binding]; other site 357348005443 active site residues [active] 357348005444 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 357348005445 MoaE interaction surface [polypeptide binding]; other site 357348005446 MoeB interaction surface [polypeptide binding]; other site 357348005447 thiocarboxylated glycine; other site 357348005448 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 357348005449 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 357348005450 dimer interface [polypeptide binding]; other site 357348005451 putative functional site; other site 357348005452 putative MPT binding site; other site 357348005453 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 357348005454 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 357348005455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348005456 catalytic residue [active] 357348005457 homoserine dehydrogenase; Provisional; Region: PRK06349 357348005458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348005459 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 357348005460 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 357348005461 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 357348005462 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 357348005463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348005464 homodimer interface [polypeptide binding]; other site 357348005465 catalytic residue [active] 357348005466 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 357348005467 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 357348005468 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 357348005469 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 357348005470 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 357348005471 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 357348005472 inhibitor-cofactor binding pocket; inhibition site 357348005473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348005474 catalytic residue [active] 357348005475 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 357348005476 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 357348005477 Ligand binding site; other site 357348005478 Putative Catalytic site; other site 357348005479 DXD motif; other site 357348005480 putative formyltransferase; Provisional; Region: PRK06988 357348005481 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 357348005482 active site 357348005483 substrate binding site [chemical binding]; other site 357348005484 cosubstrate binding site; other site 357348005485 catalytic site [active] 357348005486 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 357348005487 active site 357348005488 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 357348005489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348005490 NAD(P) binding site [chemical binding]; other site 357348005491 active site 357348005492 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 357348005493 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 357348005494 putative active site [active] 357348005495 putative catalytic site [active] 357348005496 putative Zn binding site [ion binding]; other site 357348005497 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 357348005498 catalytic triad [active] 357348005499 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 357348005500 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 357348005501 putative active site [active] 357348005502 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005503 NlpC/P60 family; Region: NLPC_P60; cl11438 357348005504 Phosphate transporter family; Region: PHO4; cl00396 357348005505 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 357348005506 replicative DNA helicase; Provisional; Region: PRK07004 357348005507 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 357348005508 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 357348005509 Walker A motif; other site 357348005510 ATP binding site [chemical binding]; other site 357348005511 Walker B motif; other site 357348005512 DNA binding loops [nucleotide binding] 357348005513 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 357348005514 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 357348005515 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 357348005516 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 357348005517 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 357348005518 Putative zinc-finger; Region: zf-HC2; cl15806 357348005519 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 357348005520 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348005521 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 357348005522 DNA binding residues [nucleotide binding] 357348005523 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 357348005524 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 357348005525 active site 357348005526 metal binding site [ion binding]; metal-binding site 357348005527 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348005528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348005529 Helix-turn-helix domains; Region: HTH; cl00088 357348005530 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348005531 putative effector binding pocket; other site 357348005532 dimerization interface [polypeptide binding]; other site 357348005533 glyoxylate carboligase; Provisional; Region: PRK11269 357348005534 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 357348005535 PYR/PP interface [polypeptide binding]; other site 357348005536 dimer interface [polypeptide binding]; other site 357348005537 TPP binding site [chemical binding]; other site 357348005538 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 357348005539 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 357348005540 TPP-binding site [chemical binding]; other site 357348005541 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 357348005542 tartronate semialdehyde reductase; Provisional; Region: PRK15059 357348005543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348005544 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 357348005545 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 357348005546 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 357348005547 active site 357348005548 homodimer interface [polypeptide binding]; other site 357348005549 homotetramer interface [polypeptide binding]; other site 357348005550 psiF repeat; Region: PsiF_repeat; pfam07769 357348005551 psiF repeat; Region: PsiF_repeat; pfam07769 357348005552 Domain of unknown function DUF221; Region: DUF221; pfam02714 357348005553 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 357348005554 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 357348005555 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 357348005556 putative ADP-binding pocket [chemical binding]; other site 357348005557 Predicted ATPase [General function prediction only]; Region: COG4637 357348005558 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005559 Walker A/P-loop; other site 357348005560 ATP binding site [chemical binding]; other site 357348005561 Mechanosensitive ion channel; Region: MS_channel; pfam00924 357348005562 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 357348005563 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 357348005564 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 357348005565 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 357348005566 active site 357348005567 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 357348005568 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348005569 DNA polymerase III subunit delta'; Validated; Region: PRK06964 357348005570 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348005571 thymidylate kinase; Validated; Region: tmk; PRK00698 357348005572 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 357348005573 TMP-binding site; other site 357348005574 ATP-binding site [chemical binding]; other site 357348005575 YceG-like family; Region: YceG; pfam02618 357348005576 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 357348005577 dimerization interface [polypeptide binding]; other site 357348005578 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 357348005579 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 357348005580 NRDE protein; Region: NRDE; cl01315 357348005581 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 357348005582 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 357348005583 Coenzyme A binding pocket [chemical binding]; other site 357348005584 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 357348005585 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 357348005586 substrate binding pocket [chemical binding]; other site 357348005587 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 357348005588 Prostaglandin dehydrogenases; Region: PGDH; cd05288 357348005589 NAD(P) binding site [chemical binding]; other site 357348005590 substrate binding site [chemical binding]; other site 357348005591 dimer interface [polypeptide binding]; other site 357348005592 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 357348005593 CoenzymeA binding site [chemical binding]; other site 357348005594 subunit interaction site [polypeptide binding]; other site 357348005595 PHB binding site; other site 357348005596 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 357348005597 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 357348005598 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 357348005599 dimer interface [polypeptide binding]; other site 357348005600 active site 357348005601 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 357348005602 catalytic triad [active] 357348005603 metal binding site [ion binding]; metal-binding site 357348005604 conserved cis-peptide bond; other site 357348005605 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348005606 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 357348005607 substrate binding site [chemical binding]; other site 357348005608 oxyanion hole (OAH) forming residues; other site 357348005609 trimer interface [polypeptide binding]; other site 357348005610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348005611 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 357348005612 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 357348005613 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 357348005614 AMP-binding enzyme; Region: AMP-binding; cl15778 357348005615 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348005616 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 357348005617 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 357348005618 SelR domain; Region: SelR; pfam01641 357348005619 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 357348005620 Intracellular septation protein A; Region: IspA; cl01098 357348005621 BolA-like protein; Region: BolA; cl00386 357348005622 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 357348005623 PPIC-type PPIASE domain; Region: Rotamase; cl08278 357348005624 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348005625 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 357348005626 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 357348005627 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 357348005628 dimerization interface [polypeptide binding]; other site 357348005629 ATP binding site [chemical binding]; other site 357348005630 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 357348005631 dimerization interface [polypeptide binding]; other site 357348005632 ATP binding site [chemical binding]; other site 357348005633 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 357348005634 putative active site [active] 357348005635 catalytic triad [active] 357348005636 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 357348005637 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 357348005638 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 357348005639 putative substrate binding site [chemical binding]; other site 357348005640 putative ATP binding site [chemical binding]; other site 357348005641 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 357348005642 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 357348005643 active site 357348005644 dimer interface [polypeptide binding]; other site 357348005645 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 357348005646 dimer interface [polypeptide binding]; other site 357348005647 active site 357348005648 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 357348005649 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 357348005650 Walker A/P-loop; other site 357348005651 ATP binding site [chemical binding]; other site 357348005652 Q-loop/lid; other site 357348005653 ABC transporter signature motif; other site 357348005654 Walker B; other site 357348005655 D-loop; other site 357348005656 H-loop/switch region; other site 357348005657 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 357348005658 active site 357348005659 catalytic triad [active] 357348005660 oxyanion hole [active] 357348005661 switch loop; other site 357348005662 SurA N-terminal domain; Region: SurA_N_3; cl07813 357348005663 periplasmic folding chaperone; Provisional; Region: PRK10788 357348005664 PPIC-type PPIASE domain; Region: Rotamase; cl08278 357348005665 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 357348005666 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 357348005667 30S subunit binding site; other site 357348005668 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 357348005669 Found in ATP-dependent protease La (LON); Region: LON; smart00464 357348005670 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 357348005671 Walker A motif; other site 357348005672 ATP binding site [chemical binding]; other site 357348005673 Walker B motif; other site 357348005674 arginine finger; other site 357348005675 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 357348005676 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 357348005677 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 357348005678 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 357348005679 Walker A motif; other site 357348005680 ATP binding site [chemical binding]; other site 357348005681 Walker B motif; other site 357348005682 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 357348005683 Clp protease; Region: CLP_protease; pfam00574 357348005684 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 357348005685 oligomer interface [polypeptide binding]; other site 357348005686 active site residues [active] 357348005687 trigger factor; Provisional; Region: tig; PRK01490 357348005688 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 357348005689 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 357348005690 Glycerate kinase family; Region: Gly_kinase; cl00841 357348005691 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 357348005692 Helix-turn-helix domains; Region: HTH; cl00088 357348005693 Helix-turn-helix domains; Region: HTH; cl00088 357348005694 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 357348005695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348005696 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 357348005697 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 357348005698 dimerization interface [polypeptide binding]; other site 357348005699 DNA binding residues [nucleotide binding] 357348005700 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348005701 trimer interface [polypeptide binding]; other site 357348005702 eyelet of channel; other site 357348005703 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 357348005704 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 357348005705 PLD-like domain; Region: PLDc_2; pfam13091 357348005706 putative active site [active] 357348005707 catalytic site [active] 357348005708 Avidin family; Region: Avidin; pfam01382 357348005709 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348005710 PAAR motif; Region: PAAR_motif; cl15808 357348005711 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 357348005712 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 357348005713 active site lid residues [active] 357348005714 substrate binding pocket [chemical binding]; other site 357348005715 catalytic residues [active] 357348005716 substrate-Mg2+ binding site; other site 357348005717 aspartate-rich region 1; other site 357348005718 aspartate-rich region 2; other site 357348005719 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 357348005720 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 357348005721 osmolarity response regulator; Provisional; Region: ompR; PRK09468 357348005722 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 357348005723 active site 357348005724 phosphorylation site [posttranslational modification] 357348005725 intermolecular recognition site; other site 357348005726 dimerization interface [polypeptide binding]; other site 357348005727 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 357348005728 DNA binding site [nucleotide binding] 357348005729 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 357348005730 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 357348005731 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 357348005732 dimer interface [polypeptide binding]; other site 357348005733 phosphorylation site [posttranslational modification] 357348005734 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 357348005735 ATP binding site [chemical binding]; other site 357348005736 Mg2+ binding site [ion binding]; other site 357348005737 G-X-G motif; other site 357348005738 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 357348005739 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 357348005740 dimer interface [polypeptide binding]; other site 357348005741 decamer (pentamer of dimers) interface [polypeptide binding]; other site 357348005742 catalytic triad [active] 357348005743 peroxidatic and resolving cysteines [active] 357348005744 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 357348005745 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 357348005746 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 357348005747 homotrimer interaction site [polypeptide binding]; other site 357348005748 zinc binding site [ion binding]; other site 357348005749 CDP-binding sites; other site 357348005750 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 357348005751 substrate binding site; other site 357348005752 dimer interface; other site 357348005753 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 357348005754 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 357348005755 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 357348005756 ATP binding site [chemical binding]; other site 357348005757 putative Mg++ binding site [ion binding]; other site 357348005758 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 357348005759 nucleotide binding region [chemical binding]; other site 357348005760 ATP-binding site [chemical binding]; other site 357348005761 TRCF domain; Region: TRCF; cl04088 357348005762 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 357348005763 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 357348005764 metal binding site [ion binding]; metal-binding site 357348005765 putative dimer interface [polypeptide binding]; other site 357348005766 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 357348005767 tetramer interface [polypeptide binding]; other site 357348005768 hypothetical protein; Provisional; Region: PRK06815 357348005769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348005770 catalytic residue [active] 357348005771 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 357348005772 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 357348005773 Transglycosylase; Region: Transgly; cl07896 357348005774 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348005775 PspA/IM30 family; Region: PspA_IM30; pfam04012 357348005776 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 357348005777 Tetratricopeptide repeat; Region: TPR_16; pfam13432 357348005778 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 357348005779 TPR motif; other site 357348005780 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 357348005781 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 357348005782 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 357348005783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348005784 Dodecin; Region: Dodecin; cl01328 357348005785 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348005786 Helix-turn-helix domains; Region: HTH; cl00088 357348005787 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 357348005788 putative substrate binding pocket [chemical binding]; other site 357348005789 putative dimerization interface [polypeptide binding]; other site 357348005790 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 357348005791 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 357348005792 active site 357348005793 putative substrate binding pocket [chemical binding]; other site 357348005794 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 357348005795 active site 357348005796 homotetramer interface [polypeptide binding]; other site 357348005797 Predicted membrane protein [Function unknown]; Region: COG3748 357348005798 Protein of unknown function (DUF989); Region: DUF989; pfam06181 357348005799 Cytochrome c; Region: Cytochrom_C; cl11414 357348005800 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 357348005801 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 357348005802 allantoicase; Provisional; Region: PRK13257 357348005803 Allantoicase repeat; Region: Allantoicase; pfam03561 357348005804 Allantoicase repeat; Region: Allantoicase; pfam03561 357348005805 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 357348005806 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 357348005807 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 357348005808 active site 357348005809 catalytic site [active] 357348005810 tetramer interface [polypeptide binding]; other site 357348005811 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 357348005812 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 357348005813 Na binding site [ion binding]; other site 357348005814 putative substrate binding site [chemical binding]; other site 357348005815 Transcriptional regulators [Transcription]; Region: GntR; COG1802 357348005816 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348005817 DNA-binding site [nucleotide binding]; DNA binding site 357348005818 FCD domain; Region: FCD; cl11656 357348005819 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 357348005820 dimer interface [polypeptide binding]; other site 357348005821 catalytic triad [active] 357348005822 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 357348005823 nucleoside/Zn binding site; other site 357348005824 dimer interface [polypeptide binding]; other site 357348005825 catalytic motif [active] 357348005826 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 357348005827 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 357348005828 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 357348005829 active site 357348005830 metal binding site [ion binding]; metal-binding site 357348005831 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 357348005832 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 357348005833 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 357348005834 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 357348005835 GMP synthase; Reviewed; Region: guaA; PRK00074 357348005836 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 357348005837 AMP/PPi binding site [chemical binding]; other site 357348005838 candidate oxyanion hole; other site 357348005839 catalytic triad [active] 357348005840 potential glutamine specificity residues [chemical binding]; other site 357348005841 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 357348005842 ATP Binding subdomain [chemical binding]; other site 357348005843 Ligand Binding sites [chemical binding]; other site 357348005844 Dimerization subdomain; other site 357348005845 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 357348005846 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 357348005847 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 357348005848 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 357348005849 active site 357348005850 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 357348005851 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 357348005852 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 357348005853 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 357348005854 putative coenzyme Q binding site [chemical binding]; other site 357348005855 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 357348005856 SmpB-tmRNA interface; other site 357348005857 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 357348005858 phosphoenolpyruvate synthase; Validated; Region: PRK06464 357348005859 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 357348005860 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 357348005861 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 357348005862 Phytochelatin synthase; Region: Phytochelatin; pfam05023 357348005863 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 357348005864 peptidase domain interface [polypeptide binding]; other site 357348005865 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 357348005866 active site 357348005867 catalytic triad [active] 357348005868 calcium binding site [ion binding]; other site 357348005869 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 357348005870 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 357348005871 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 357348005872 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 357348005873 RNA/DNA hybrid binding site [nucleotide binding]; other site 357348005874 active site 357348005875 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 357348005876 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 357348005877 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 357348005878 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 357348005879 active site 357348005880 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 357348005881 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 357348005882 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 357348005883 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 357348005884 trimer interface [polypeptide binding]; other site 357348005885 active site 357348005886 UDP-GlcNAc binding site [chemical binding]; other site 357348005887 lipid binding site [chemical binding]; lipid-binding site 357348005888 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 357348005889 periplasmic chaperone; Provisional; Region: PRK10780 357348005890 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 357348005891 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348005892 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348005893 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348005894 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348005895 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348005896 Surface antigen; Region: Bac_surface_Ag; cl03097 357348005897 zinc metallopeptidase RseP; Provisional; Region: PRK10779 357348005898 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 357348005899 active site 357348005900 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 357348005901 protein binding site [polypeptide binding]; other site 357348005902 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 357348005903 putative substrate binding region [chemical binding]; other site 357348005904 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 357348005905 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 357348005906 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 357348005907 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 357348005908 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 357348005909 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 357348005910 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 357348005911 catalytic residue [active] 357348005912 putative FPP diphosphate binding site; other site 357348005913 putative FPP binding hydrophobic cleft; other site 357348005914 dimer interface [polypeptide binding]; other site 357348005915 putative IPP diphosphate binding site; other site 357348005916 ribosome recycling factor; Reviewed; Region: frr; PRK00083 357348005917 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 357348005918 hinge region; other site 357348005919 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 357348005920 putative nucleotide binding site [chemical binding]; other site 357348005921 uridine monophosphate binding site [chemical binding]; other site 357348005922 homohexameric interface [polypeptide binding]; other site 357348005923 elongation factor Ts; Provisional; Region: tsf; PRK09377 357348005924 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 357348005925 Elongation factor TS; Region: EF_TS; pfam00889 357348005926 Elongation factor TS; Region: EF_TS; pfam00889 357348005927 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 357348005928 rRNA interaction site [nucleotide binding]; other site 357348005929 S8 interaction site; other site 357348005930 putative laminin-1 binding site; other site 357348005931 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 357348005932 active site 357348005933 PII uridylyl-transferase; Provisional; Region: PRK03059 357348005934 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 357348005935 metal binding triad; other site 357348005936 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 357348005937 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 357348005938 Zn2+ binding site [ion binding]; other site 357348005939 Mg2+ binding site [ion binding]; other site 357348005940 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 357348005941 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 357348005942 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 357348005943 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 357348005944 RNA binding surface [nucleotide binding]; other site 357348005945 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 357348005946 active site 357348005947 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 357348005948 active site 357348005949 catalytic residues [active] 357348005950 metal binding site [ion binding]; metal-binding site 357348005951 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 357348005952 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 357348005953 nucleotide binding pocket [chemical binding]; other site 357348005954 K-X-D-G motif; other site 357348005955 catalytic site [active] 357348005956 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 357348005957 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 357348005958 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 357348005959 Dimer interface [polypeptide binding]; other site 357348005960 BRCT sequence motif; other site 357348005961 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 357348005962 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 357348005963 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 357348005964 Walker A/P-loop; other site 357348005965 ATP binding site [chemical binding]; other site 357348005966 Q-loop/lid; other site 357348005967 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 357348005968 Q-loop/lid; other site 357348005969 ABC transporter signature motif; other site 357348005970 Walker B; other site 357348005971 D-loop; other site 357348005972 H-loop/switch region; other site 357348005973 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 357348005974 EamA-like transporter family; Region: EamA; cl01037 357348005975 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 357348005976 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 357348005977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348005978 homodimer interface [polypeptide binding]; other site 357348005979 catalytic residue [active] 357348005980 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: dapD; TIGR00965 357348005981 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 357348005982 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 357348005983 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 357348005984 ArsC family; Region: ArsC; pfam03960 357348005985 putative catalytic residues [active] 357348005986 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 357348005987 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 357348005988 metal binding site [ion binding]; metal-binding site 357348005989 dimer interface [polypeptide binding]; other site 357348005990 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348005991 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 357348005992 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 357348005993 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 357348005994 putative active site [active] 357348005995 catalytic site [active] 357348005996 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 357348005997 putative active site [active] 357348005998 catalytic site [active] 357348005999 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 357348006000 catalytic residues [active] 357348006001 dimer interface [polypeptide binding]; other site 357348006002 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 357348006003 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 357348006004 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 357348006005 ABC transporter; Region: ABC_tran_2; pfam12848 357348006006 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 357348006007 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 357348006008 DNA repair protein RadA; Provisional; Region: PRK11823 357348006009 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 357348006010 Walker A motif/ATP binding site; other site 357348006011 ATP binding site [chemical binding]; other site 357348006012 Walker B motif; other site 357348006013 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 357348006014 alanine racemase; Reviewed; Region: dadX; PRK03646 357348006015 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 357348006016 active site 357348006017 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 357348006018 substrate binding site [chemical binding]; other site 357348006019 catalytic residues [active] 357348006020 dimer interface [polypeptide binding]; other site 357348006021 lysophospholipid transporter LplT; Provisional; Region: PRK11195 357348006022 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 357348006023 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 357348006024 dimer interface [polypeptide binding]; other site 357348006025 substrate binding site [chemical binding]; other site 357348006026 ATP binding site [chemical binding]; other site 357348006027 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 357348006028 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 357348006029 Fe-S cluster binding site [ion binding]; other site 357348006030 active site 357348006031 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 357348006032 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 357348006033 Coenzyme A binding pocket [chemical binding]; other site 357348006034 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 357348006035 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 357348006036 acyl-CoA binding pocket [chemical binding]; other site 357348006037 CoA binding site [chemical binding]; other site 357348006038 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 357348006039 DEAD-like helicases superfamily; Region: DEXDc; smart00487 357348006040 ATP binding site [chemical binding]; other site 357348006041 Mg++ binding site [ion binding]; other site 357348006042 motif III; other site 357348006043 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 357348006044 nucleotide binding region [chemical binding]; other site 357348006045 ATP-binding site [chemical binding]; other site 357348006046 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 357348006047 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 357348006048 tetramer interface [polypeptide binding]; other site 357348006049 active site 357348006050 Mg2+/Mn2+ binding site [ion binding]; other site 357348006051 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 357348006052 Ligand Binding Site [chemical binding]; other site 357348006053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348006054 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348006055 putative effector binding pocket; other site 357348006056 dimerization interface [polypeptide binding]; other site 357348006057 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 357348006058 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348006059 malate synthase A; Region: malate_syn_A; TIGR01344 357348006060 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 357348006061 active site 357348006062 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 357348006063 putative active site pocket [active] 357348006064 dimerization interface [polypeptide binding]; other site 357348006065 putative catalytic residue [active] 357348006066 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 357348006067 Cupin domain; Region: Cupin_2; cl09118 357348006068 Helix-turn-helix domain; Region: HTH_18; pfam12833 357348006069 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348006070 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348006071 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 357348006072 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 357348006073 active site 357348006074 HIGH motif; other site 357348006075 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 357348006076 active site 357348006077 KMSKS motif; other site 357348006078 hypothetical protein; Provisional; Region: PRK10279 357348006079 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 357348006080 nucleophile elbow; other site 357348006081 NlpC/P60 family; Region: NLPC_P60; cl11438 357348006082 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 357348006083 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 357348006084 Walker A/P-loop; other site 357348006085 ATP binding site [chemical binding]; other site 357348006086 Q-loop/lid; other site 357348006087 ABC transporter signature motif; other site 357348006088 Walker B; other site 357348006089 D-loop; other site 357348006090 H-loop/switch region; other site 357348006091 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 357348006092 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 357348006093 Walker A/P-loop; other site 357348006094 ATP binding site [chemical binding]; other site 357348006095 Q-loop/lid; other site 357348006096 ABC transporter signature motif; other site 357348006097 Walker B; other site 357348006098 D-loop; other site 357348006099 H-loop/switch region; other site 357348006100 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 357348006101 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 357348006102 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 357348006103 dimer interface [polypeptide binding]; other site 357348006104 conserved gate region; other site 357348006105 putative PBP binding loops; other site 357348006106 ABC-ATPase subunit interface; other site 357348006107 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 357348006108 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 357348006109 dimer interface [polypeptide binding]; other site 357348006110 conserved gate region; other site 357348006111 putative PBP binding loops; other site 357348006112 ABC-ATPase subunit interface; other site 357348006113 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 357348006114 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 357348006115 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 357348006116 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 357348006117 NAD binding site [chemical binding]; other site 357348006118 homotetramer interface [polypeptide binding]; other site 357348006119 homodimer interface [polypeptide binding]; other site 357348006120 substrate binding site [chemical binding]; other site 357348006121 active site 357348006122 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 357348006123 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 357348006124 putative [Fe4-S4] binding site [ion binding]; other site 357348006125 putative molybdopterin cofactor binding site [chemical binding]; other site 357348006126 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 357348006127 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 357348006128 putative molybdopterin cofactor binding site; other site 357348006129 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 357348006130 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 357348006131 FAD binding pocket [chemical binding]; other site 357348006132 FAD binding motif [chemical binding]; other site 357348006133 phosphate binding motif [ion binding]; other site 357348006134 beta-alpha-beta structure motif; other site 357348006135 NAD binding pocket [chemical binding]; other site 357348006136 Ferredoxin [Energy production and conversion]; Region: COG1146 357348006137 4Fe-4S binding domain; Region: Fer4; cl02805 357348006138 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 357348006139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348006140 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 357348006141 active site 357348006142 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 357348006143 argininosuccinate lyase; Provisional; Region: PRK02186 357348006144 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348006145 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 357348006146 active sites [active] 357348006147 tetramer interface [polypeptide binding]; other site 357348006148 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 357348006149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348006150 catalytic residue [active] 357348006151 dimer interface [polypeptide binding]; other site 357348006152 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348006153 G1 box; other site 357348006154 GTP/Mg2+ binding site [chemical binding]; other site 357348006155 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 357348006156 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 357348006157 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 357348006158 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 357348006159 Active Sites [active] 357348006160 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 357348006161 active site 357348006162 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 357348006163 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348006164 catalytic residue [active] 357348006165 OpgC protein; Region: OpgC_C; cl00792 357348006166 Acyltransferase family; Region: Acyl_transf_3; pfam01757 357348006167 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 357348006168 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 357348006169 PYR/PP interface [polypeptide binding]; other site 357348006170 dimer interface [polypeptide binding]; other site 357348006171 TPP binding site [chemical binding]; other site 357348006172 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 357348006173 TPP-binding site [chemical binding]; other site 357348006174 dimer interface [polypeptide binding]; other site 357348006175 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348006176 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 357348006177 S-adenosylmethionine binding site [chemical binding]; other site 357348006178 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 357348006179 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348006180 active site 357348006181 iron coordination sites [ion binding]; other site 357348006182 substrate binding pocket [chemical binding]; other site 357348006183 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 357348006184 peptide synthase; Provisional; Region: PRK12467 357348006185 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348006186 AMP-binding enzyme; Region: AMP-binding; cl15778 357348006187 AMP-binding enzyme; Region: AMP-binding; cl15778 357348006188 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348006189 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 357348006190 AMP-binding enzyme; Region: AMP-binding; cl15778 357348006191 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348006192 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 357348006193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 357348006194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348006195 Transmembrane secretion effector; Region: MFS_3; pfam05977 357348006196 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 357348006197 putative substrate translocation pore; other site 357348006198 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 357348006199 AMP-binding enzyme; Region: AMP-binding; cl15778 357348006200 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348006201 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 357348006202 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 357348006203 ligand-binding site [chemical binding]; other site 357348006204 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 357348006205 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 357348006206 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 357348006207 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 357348006208 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 357348006209 active site 357348006210 catalytic triad [active] 357348006211 oxyanion hole [active] 357348006212 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 357348006213 aspartate kinase; Reviewed; Region: PRK06635 357348006214 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 357348006215 putative nucleotide binding site [chemical binding]; other site 357348006216 putative catalytic residues [active] 357348006217 putative Mg ion binding site [ion binding]; other site 357348006218 putative aspartate binding site [chemical binding]; other site 357348006219 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 357348006220 putative allosteric regulatory site; other site 357348006221 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 357348006222 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 357348006223 Ligand Binding Site [chemical binding]; other site 357348006224 TilS substrate binding domain; Region: TilS; pfam09179 357348006225 B3/4 domain; Region: B3_4; cl11458 357348006226 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 357348006227 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 357348006228 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 357348006229 endonuclease III; Region: ENDO3c; smart00478 357348006230 minor groove reading motif; other site 357348006231 helix-hairpin-helix signature motif; other site 357348006232 substrate binding pocket [chemical binding]; other site 357348006233 active site 357348006234 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 357348006235 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 357348006236 active site 357348006237 HIGH motif; other site 357348006238 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 357348006239 KMSKS motif; other site 357348006240 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 357348006241 tRNA binding surface [nucleotide binding]; other site 357348006242 anticodon binding site; other site 357348006243 TPR repeat; Region: TPR_11; pfam13414 357348006244 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 357348006245 binding surface 357348006246 TPR motif; other site 357348006247 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 357348006248 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 357348006249 substrate binding site [chemical binding]; other site 357348006250 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 357348006251 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 357348006252 substrate binding site [chemical binding]; other site 357348006253 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 357348006254 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 357348006255 putative active site [active] 357348006256 putative metal binding site [ion binding]; other site 357348006257 serine O-acetyltransferase; Region: cysE; TIGR01172 357348006258 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 357348006259 trimer interface [polypeptide binding]; other site 357348006260 active site 357348006261 substrate binding site [chemical binding]; other site 357348006262 CoA binding site [chemical binding]; other site 357348006263 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 357348006264 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 357348006265 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 357348006266 active site 357348006267 dimerization interface [polypeptide binding]; other site 357348006268 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 357348006269 Transposase; Region: DDE_Tnp_ISL3; pfam01610 357348006270 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 357348006271 MutS domain I; Region: MutS_I; pfam01624 357348006272 MutS domain II; Region: MutS_II; pfam05188 357348006273 MutS family domain IV; Region: MutS_IV; pfam05190 357348006274 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 357348006275 Walker A/P-loop; other site 357348006276 ATP binding site [chemical binding]; other site 357348006277 Q-loop/lid; other site 357348006278 ABC transporter signature motif; other site 357348006279 Walker B; other site 357348006280 D-loop; other site 357348006281 H-loop/switch region; other site 357348006282 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 357348006283 Uncharacterized conserved protein [Function unknown]; Region: COG2850 357348006284 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348006285 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 357348006286 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 357348006287 dihydrodipicolinate synthase; Region: dapA; TIGR00674 357348006288 dimer interface [polypeptide binding]; other site 357348006289 active site 357348006290 catalytic residue [active] 357348006291 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348006292 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 357348006293 active site 357348006294 HIGH motif; other site 357348006295 dimer interface [polypeptide binding]; other site 357348006296 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348006297 active site 357348006298 KMSKS motif; other site 357348006299 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 357348006300 active site 357348006301 putative substrate binding region [chemical binding]; other site 357348006302 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 357348006303 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 357348006304 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 357348006305 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348006306 nucleophilic elbow; other site 357348006307 catalytic triad; other site 357348006308 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 357348006309 dinuclear metal binding motif [ion binding]; other site 357348006310 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 357348006311 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 357348006312 trimer interface [polypeptide binding]; other site 357348006313 putative metal binding site [ion binding]; other site 357348006314 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 357348006315 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 357348006316 dimerization interface [polypeptide binding]; other site 357348006317 domain crossover interface; other site 357348006318 redox-dependent activation switch; other site 357348006319 Septum formation initiator; Region: DivIC; cl11433 357348006320 enolase; Provisional; Region: eno; PRK00077 357348006321 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 357348006322 dimer interface [polypeptide binding]; other site 357348006323 metal binding site [ion binding]; metal-binding site 357348006324 substrate binding pocket [chemical binding]; other site 357348006325 NeuB family; Region: NeuB; cl00496 357348006326 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 357348006327 CTP synthetase; Validated; Region: pyrG; PRK05380 357348006328 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 357348006329 Catalytic site [active] 357348006330 active site 357348006331 UTP binding site [chemical binding]; other site 357348006332 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 357348006333 active site 357348006334 putative oxyanion hole; other site 357348006335 catalytic triad [active] 357348006336 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348006337 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cd00741 357348006338 nucleophilic elbow; other site 357348006339 catalytic triad; other site 357348006340 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 357348006341 Competence protein; Region: Competence; cl00471 357348006342 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348006343 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 357348006344 active site 357348006345 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 357348006346 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 357348006347 Walker A/P-loop; other site 357348006348 ATP binding site [chemical binding]; other site 357348006349 Q-loop/lid; other site 357348006350 ABC transporter signature motif; other site 357348006351 Walker B; other site 357348006352 D-loop; other site 357348006353 H-loop/switch region; other site 357348006354 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 357348006355 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 357348006356 FtsX-like permease family; Region: FtsX; cl15850 357348006357 Sulfatase; Region: Sulfatase; cl10460 357348006358 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 357348006359 DHH family; Region: DHH; pfam01368 357348006360 DHHA1 domain; Region: DHHA1; pfam02272 357348006361 peptide chain release factor 2; Validated; Region: prfB; PRK00578 357348006362 RF-1 domain; Region: RF-1; cl02875 357348006363 RF-1 domain; Region: RF-1; cl02875 357348006364 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 357348006365 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 357348006366 dimer interface [polypeptide binding]; other site 357348006367 putative anticodon binding site; other site 357348006368 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 357348006369 motif 1; other site 357348006370 active site 357348006371 motif 2; other site 357348006372 motif 3; other site 357348006373 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 357348006374 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 357348006375 catalytic loop [active] 357348006376 iron binding site [ion binding]; other site 357348006377 chaperone protein HscA; Provisional; Region: hscA; PRK05183 357348006378 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 357348006379 co-chaperone HscB; Provisional; Region: hscB; PRK03578 357348006380 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 357348006381 HSP70 interaction site [polypeptide binding]; other site 357348006382 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 357348006383 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 357348006384 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 357348006385 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 357348006386 trimerization site [polypeptide binding]; other site 357348006387 active site 357348006388 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 357348006389 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 357348006390 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348006391 catalytic residue [active] 357348006392 Helix-turn-helix domains; Region: HTH; cl00088 357348006393 Rrf2 family protein; Region: rrf2_super; TIGR00738 357348006394 Low molecular weight phosphatase family; Region: LMWPc; cd00115 357348006395 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 357348006396 active site 357348006397 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 357348006398 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 357348006399 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 357348006400 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 357348006401 Cysteine-rich domain; Region: CCG; pfam02754 357348006402 Cysteine-rich domain; Region: CCG; pfam02754 357348006403 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348006404 Helix-turn-helix domains; Region: HTH; cl00088 357348006405 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348006406 Transposase domain (DUF772); Region: DUF772; pfam05598 357348006407 DDE superfamily endonuclease; Region: DDE_4; cl15789 357348006408 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 357348006409 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348006410 Phasin protein; Region: Phasin_2; cl11491 357348006411 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 357348006412 E3 interaction surface; other site 357348006413 lipoyl attachment site [posttranslational modification]; other site 357348006414 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 357348006415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348006416 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348006417 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 357348006418 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 357348006419 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 357348006420 E3 interaction surface; other site 357348006421 lipoyl attachment site [posttranslational modification]; other site 357348006422 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 357348006423 E3 interaction surface; other site 357348006424 lipoyl attachment site [posttranslational modification]; other site 357348006425 e3 binding domain; Region: E3_binding; pfam02817 357348006426 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 357348006427 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 357348006428 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 357348006429 dimer interface [polypeptide binding]; other site 357348006430 TPP-binding site [chemical binding]; other site 357348006431 PAS domain S-box; Region: sensory_box; TIGR00229 357348006432 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 357348006433 putative active site [active] 357348006434 heme pocket [chemical binding]; other site 357348006435 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 357348006436 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 357348006437 dimer interface [polypeptide binding]; other site 357348006438 phosphorylation site [posttranslational modification] 357348006439 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 357348006440 ATP binding site [chemical binding]; other site 357348006441 Mg2+ binding site [ion binding]; other site 357348006442 G-X-G motif; other site 357348006443 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 357348006444 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 357348006445 active site 357348006446 phosphorylation site [posttranslational modification] 357348006447 intermolecular recognition site; other site 357348006448 dimerization interface [polypeptide binding]; other site 357348006449 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 357348006450 DNA binding residues [nucleotide binding] 357348006451 dimerization interface [polypeptide binding]; other site 357348006452 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 357348006453 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 357348006454 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 357348006455 homodimer interface [polypeptide binding]; other site 357348006456 NADP binding site [chemical binding]; other site 357348006457 substrate binding site [chemical binding]; other site 357348006458 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 357348006459 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 357348006460 active site 357348006461 Zn binding site [ion binding]; other site 357348006462 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 357348006463 active site 357348006464 DNA polymerase IV; Validated; Region: PRK02406 357348006465 DNA binding site [nucleotide binding] 357348006466 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 357348006467 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 357348006468 putative substrate translocation pore; other site 357348006469 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 357348006470 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 357348006471 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 357348006472 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 357348006473 [4Fe-4S] binding site [ion binding]; other site 357348006474 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 357348006475 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 357348006476 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 357348006477 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 357348006478 molybdopterin cofactor binding site; other site 357348006479 nitrate reductase, beta subunit; Region: narH; TIGR01660 357348006480 4Fe-4S binding domain; Region: Fer4; cl02805 357348006481 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 357348006482 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 357348006483 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 357348006484 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 357348006485 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 357348006486 dimerization interface [polypeptide binding]; other site 357348006487 GAF domain; Region: GAF; cl15785 357348006488 Histidine kinase; Region: HisKA_3; pfam07730 357348006489 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 357348006490 transcriptional regulator NarL; Provisional; Region: PRK10651 357348006491 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 357348006492 active site 357348006493 phosphorylation site [posttranslational modification] 357348006494 intermolecular recognition site; other site 357348006495 dimerization interface [polypeptide binding]; other site 357348006496 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 357348006497 DNA binding residues [nucleotide binding] 357348006498 dimerization interface [polypeptide binding]; other site 357348006499 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 357348006500 putative catalytic site [active] 357348006501 putative phosphate binding site [ion binding]; other site 357348006502 active site 357348006503 metal binding site A [ion binding]; metal-binding site 357348006504 DNA binding site [nucleotide binding] 357348006505 putative AP binding site [nucleotide binding]; other site 357348006506 putative metal binding site B [ion binding]; other site 357348006507 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 357348006508 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 357348006509 active site 357348006510 phosphorylation site [posttranslational modification] 357348006511 intermolecular recognition site; other site 357348006512 dimerization interface [polypeptide binding]; other site 357348006513 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 357348006514 Walker A motif; other site 357348006515 ATP binding site [chemical binding]; other site 357348006516 Walker B motif; other site 357348006517 arginine finger; other site 357348006518 Helix-turn-helix domains; Region: HTH; cl00088 357348006519 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 357348006520 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 357348006521 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 357348006522 dimer interface [polypeptide binding]; other site 357348006523 phosphorylation site [posttranslational modification] 357348006524 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 357348006525 ATP binding site [chemical binding]; other site 357348006526 Mg2+ binding site [ion binding]; other site 357348006527 G-X-G motif; other site 357348006528 glutamine synthetase; Provisional; Region: glnA; PRK09469 357348006529 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 357348006530 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 357348006531 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 357348006532 active site residue [active] 357348006533 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 357348006534 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 357348006535 putative MPT binding site; other site 357348006536 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 357348006537 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 357348006538 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 357348006539 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 357348006540 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 357348006541 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 357348006542 ATP binding site [chemical binding]; other site 357348006543 putative Mg++ binding site [ion binding]; other site 357348006544 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 357348006545 nucleotide binding region [chemical binding]; other site 357348006546 ATP-binding site [chemical binding]; other site 357348006547 Helicase associated domain (HA2); Region: HA2; cl04503 357348006548 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 357348006549 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 357348006550 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 357348006551 N-acetylglutamate synthase; Validated; Region: PRK05279 357348006552 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 357348006553 putative feedback inhibition sensing region; other site 357348006554 putative nucleotide binding site [chemical binding]; other site 357348006555 putative substrate binding site [chemical binding]; other site 357348006556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 357348006557 Coenzyme A binding pocket [chemical binding]; other site 357348006558 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 357348006559 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 357348006560 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348006561 putative substrate translocation pore; other site 357348006562 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 357348006563 CoA-transferase family III; Region: CoA_transf_3; pfam02515 357348006564 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348006565 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348006566 active site 357348006567 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 357348006568 Helix-turn-helix domains; Region: HTH; cl00088 357348006569 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 357348006570 dimerization interface [polypeptide binding]; other site 357348006571 HTH-like domain; Region: HTH_21; pfam13276 357348006572 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 357348006573 Integrase core domain; Region: rve; cl01316 357348006574 Integrase core domain; Region: rve_3; cl15866 357348006575 Helix-turn-helix domains; Region: HTH; cl00088 357348006576 putative aminotransferase; Validated; Region: PRK07480 357348006577 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 357348006578 inhibitor-cofactor binding pocket; inhibition site 357348006579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348006580 catalytic residue [active] 357348006581 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 357348006582 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 357348006583 Peptidase C26; Region: Peptidase_C26; pfam07722 357348006584 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 357348006585 catalytic triad [active] 357348006586 N-formylglutamate amidohydrolase; Region: FGase; cl01522 357348006587 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 357348006588 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 357348006589 active site 357348006590 imidazolonepropionase; Validated; Region: PRK09356 357348006591 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 357348006592 active site 357348006593 HutD; Region: HutD; cl01532 357348006594 urocanate hydratase; Provisional; Region: PRK05414 357348006595 urocanate hydratase; Region: hutU; TIGR01228 357348006596 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 357348006597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348006598 DNA-binding site [nucleotide binding]; DNA binding site 357348006599 UTRA domain; Region: UTRA; cl01230 357348006600 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 357348006601 active sites [active] 357348006602 tetramer interface [polypeptide binding]; other site 357348006603 Transposase domain (DUF772); Region: DUF772; pfam05598 357348006604 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 357348006605 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 357348006606 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 357348006607 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 357348006608 Autoinducer binding domain; Region: Autoind_bind; pfam03472 357348006609 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 357348006610 DNA binding residues [nucleotide binding] 357348006611 dimerization interface [polypeptide binding]; other site 357348006612 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 357348006613 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 357348006614 ligand-binding site [chemical binding]; other site 357348006615 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 357348006616 DNA photolyase; Region: DNA_photolyase; pfam00875 357348006617 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 357348006618 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 357348006619 Fatty acid desaturase; Region: FA_desaturase; pfam00487 357348006620 Di-iron ligands [ion binding]; other site 357348006621 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 357348006622 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 357348006623 Domain of unknown function DUF59; Region: DUF59; cl00941 357348006624 NnrS protein; Region: NnrS; cl01258 357348006625 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 357348006626 Class III ribonucleotide reductase; Region: RNR_III; cd01675 357348006627 effector binding site; other site 357348006628 active site 357348006629 Zn binding site [ion binding]; other site 357348006630 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 357348006631 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 357348006632 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 357348006633 FeS/SAM binding site; other site 357348006634 DGC domain; Region: DGC; cl01742 357348006635 SCP-2 sterol transfer family; Region: SCP2; cl01225 357348006636 Peptidase family U32; Region: Peptidase_U32; cl03113 357348006637 Peptidase family U32; Region: Peptidase_U32; cl03113 357348006638 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 357348006639 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 357348006640 FMN binding site [chemical binding]; other site 357348006641 substrate binding site [chemical binding]; other site 357348006642 putative catalytic residue [active] 357348006643 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 357348006644 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 357348006645 ligand binding site [chemical binding]; other site 357348006646 flexible hinge region; other site 357348006647 Helix-turn-helix domains; Region: HTH; cl00088 357348006648 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 357348006649 HemN C-terminal domain; Region: HemN_C; pfam06969 357348006650 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 357348006651 dimerization interface [polypeptide binding]; other site 357348006652 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348006653 dimer interface [polypeptide binding]; other site 357348006654 putative CheW interface [polypeptide binding]; other site 357348006655 NnrS protein; Region: NnrS; cl01258 357348006656 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 357348006657 putative ABC transporter; Region: ycf24; CHL00085 357348006658 FeS assembly ATPase SufC; Region: sufC; TIGR01978 357348006659 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 357348006660 Walker A/P-loop; other site 357348006661 ATP binding site [chemical binding]; other site 357348006662 Q-loop/lid; other site 357348006663 ABC transporter signature motif; other site 357348006664 Walker B; other site 357348006665 D-loop; other site 357348006666 H-loop/switch region; other site 357348006667 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 357348006668 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 357348006669 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 357348006670 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348006671 catalytic residue [active] 357348006672 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 357348006673 trimerization site [polypeptide binding]; other site 357348006674 active site 357348006675 Domain of unknown function DUF59; Region: DUF59; cl00941 357348006676 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 357348006677 Helix-turn-helix domains; Region: HTH; cl00088 357348006678 Rrf2 family protein; Region: rrf2_super; TIGR00738 357348006679 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 357348006680 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 357348006681 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348006682 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 357348006683 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 357348006684 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 357348006685 D-pathway; other site 357348006686 Putative ubiquinol binding site [chemical binding]; other site 357348006687 Low-spin heme (heme b) binding site [chemical binding]; other site 357348006688 Putative water exit pathway; other site 357348006689 Binuclear center (heme o3/CuB) [ion binding]; other site 357348006690 K-pathway; other site 357348006691 Putative proton exit pathway; other site 357348006692 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 357348006693 Subunit I/III interface [polypeptide binding]; other site 357348006694 Subunit III/IV interface [polypeptide binding]; other site 357348006695 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 357348006696 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 357348006697 Fatty acid desaturase; Region: FA_desaturase; pfam00487 357348006698 putative di-iron ligands [ion binding]; other site 357348006699 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 357348006700 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 357348006701 substrate binding pocket [chemical binding]; other site 357348006702 membrane-bound complex binding site; other site 357348006703 hinge residues; other site 357348006704 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 357348006705 dimer interface [polypeptide binding]; other site 357348006706 N-terminal domain interface [polypeptide binding]; other site 357348006707 substrate binding pocket (H-site) [chemical binding]; other site 357348006708 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 357348006709 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 357348006710 active site 357348006711 Zn binding site [ion binding]; other site 357348006712 Succinylarginine dihydrolase; Region: AstB; cl01511 357348006713 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348006714 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 357348006715 NAD(P) binding site [chemical binding]; other site 357348006716 catalytic residues [active] 357348006717 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 357348006718 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 357348006719 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 357348006720 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 357348006721 inhibitor-cofactor binding pocket; inhibition site 357348006722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348006723 catalytic residue [active] 357348006724 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 357348006725 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 357348006726 conserved cys residue [active] 357348006727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348006728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348006729 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 357348006730 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 357348006731 Walker A/P-loop; other site 357348006732 ATP binding site [chemical binding]; other site 357348006733 Q-loop/lid; other site 357348006734 ABC transporter signature motif; other site 357348006735 Walker B; other site 357348006736 D-loop; other site 357348006737 H-loop/switch region; other site 357348006738 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 357348006739 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 357348006740 dimer interface [polypeptide binding]; other site 357348006741 conserved gate region; other site 357348006742 putative PBP binding loops; other site 357348006743 ABC-ATPase subunit interface; other site 357348006744 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 357348006745 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 357348006746 dimer interface [polypeptide binding]; other site 357348006747 conserved gate region; other site 357348006748 putative PBP binding loops; other site 357348006749 ABC-ATPase subunit interface; other site 357348006750 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 357348006751 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 357348006752 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 357348006753 putative active site [active] 357348006754 YdjC motif; other site 357348006755 Mg binding site [ion binding]; other site 357348006756 putative homodimer interface [polypeptide binding]; other site 357348006757 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 357348006758 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 357348006759 B12 binding site [chemical binding]; other site 357348006760 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 357348006761 FeS/SAM binding site; other site 357348006762 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 357348006763 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 357348006764 ligand binding site; other site 357348006765 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 357348006766 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 357348006767 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 357348006768 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 357348006769 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348006770 pyridoxamine kinase; Validated; Region: PRK05756 357348006771 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 357348006772 dimer interface [polypeptide binding]; other site 357348006773 pyridoxal binding site [chemical binding]; other site 357348006774 ATP binding site [chemical binding]; other site 357348006775 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 357348006776 Phosphoesterase family; Region: Phosphoesterase; cl15450 357348006777 Domain of unknown function (DUF756); Region: DUF756; pfam05506 357348006778 Domain of unknown function (DUF756); Region: DUF756; pfam05506 357348006779 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 357348006780 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 357348006781 dimerization interface [polypeptide binding]; other site 357348006782 ligand binding site [chemical binding]; other site 357348006783 FAD dependent oxidoreductase; Region: DAO; pfam01266 357348006784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348006785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348006786 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 357348006787 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 357348006788 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 357348006789 putative ADP-binding pocket [chemical binding]; other site 357348006790 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 357348006791 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 357348006792 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 357348006793 Walker A/P-loop; other site 357348006794 ATP binding site [chemical binding]; other site 357348006795 Q-loop/lid; other site 357348006796 ABC transporter signature motif; other site 357348006797 Walker B; other site 357348006798 D-loop; other site 357348006799 H-loop/switch region; other site 357348006800 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 357348006801 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 357348006802 active site 357348006803 homotetramer interface [polypeptide binding]; other site 357348006804 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348006805 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 357348006806 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 357348006807 Cu(I) binding site [ion binding]; other site 357348006808 Protein of unknown function (DUF461); Region: DUF461; cl01071 357348006809 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 357348006810 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348006811 Pirin-related protein [General function prediction only]; Region: COG1741 357348006812 Cupin domain; Region: Cupin_2; cl09118 357348006813 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 357348006814 LysR family transcriptional regulator; Provisional; Region: PRK14997 357348006815 Helix-turn-helix domains; Region: HTH; cl00088 357348006816 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 357348006817 putative effector binding pocket; other site 357348006818 putative dimerization interface [polypeptide binding]; other site 357348006819 GAF domain; Region: GAF; cl15785 357348006820 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 357348006821 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 357348006822 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 357348006823 GIY-YIG motif/motif A; other site 357348006824 active site 357348006825 catalytic site [active] 357348006826 putative DNA binding site [nucleotide binding]; other site 357348006827 metal binding site [ion binding]; metal-binding site 357348006828 UvrB/uvrC motif; Region: UVR; pfam02151 357348006829 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 357348006830 ERCC4-type nuclease [DNA replication, recombination, and repair]; Region: MUS81; COG1948 357348006831 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 357348006832 elongation factor P; Validated; Region: PRK00529 357348006833 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 357348006834 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 357348006835 RNA binding site [nucleotide binding]; other site 357348006836 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 357348006837 RNA binding site [nucleotide binding]; other site 357348006838 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 357348006839 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 357348006840 active site 357348006841 phosphorylation site [posttranslational modification] 357348006842 intermolecular recognition site; other site 357348006843 dimerization interface [polypeptide binding]; other site 357348006844 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 357348006845 Walker A motif; other site 357348006846 ATP binding site [chemical binding]; other site 357348006847 Walker B motif; other site 357348006848 Helix-turn-helix domains; Region: HTH; cl00088 357348006849 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 357348006850 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 357348006851 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 357348006852 active site 357348006853 hydrophilic channel; other site 357348006854 dimerization interface [polypeptide binding]; other site 357348006855 catalytic residues [active] 357348006856 active site lid [active] 357348006857 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 357348006858 Recombination protein O N terminal; Region: RecO_N; cl15812 357348006859 Recombination protein O C terminal; Region: RecO_C; pfam02565 357348006860 GTPase Era; Reviewed; Region: era; PRK00089 357348006861 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 357348006862 G1 box; other site 357348006863 GTP/Mg2+ binding site [chemical binding]; other site 357348006864 Switch I region; other site 357348006865 G2 box; other site 357348006866 Switch II region; other site 357348006867 G3 box; other site 357348006868 G4 box; other site 357348006869 G5 box; other site 357348006870 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 357348006871 ribonuclease III; Provisional; Region: PRK14718 357348006872 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 357348006873 dimerization interface [polypeptide binding]; other site 357348006874 active site 357348006875 metal binding site [ion binding]; metal-binding site 357348006876 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 357348006877 signal peptidase I; Provisional; Region: PRK10861 357348006878 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 357348006879 Catalytic site [active] 357348006880 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 357348006881 GTP-binding protein LepA; Provisional; Region: PRK05433 357348006882 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 357348006883 G1 box; other site 357348006884 putative GEF interaction site [polypeptide binding]; other site 357348006885 GTP/Mg2+ binding site [chemical binding]; other site 357348006886 Switch I region; other site 357348006887 G2 box; other site 357348006888 G3 box; other site 357348006889 Switch II region; other site 357348006890 G4 box; other site 357348006891 G5 box; other site 357348006892 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 357348006893 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 357348006894 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 357348006895 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 357348006896 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 357348006897 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 357348006898 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 357348006899 protein binding site [polypeptide binding]; other site 357348006900 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 357348006901 protein binding site [polypeptide binding]; other site 357348006902 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 357348006903 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 357348006904 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 357348006905 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 357348006906 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348006907 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 357348006908 DNA binding residues [nucleotide binding] 357348006909 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 357348006910 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 357348006911 dimer interface [polypeptide binding]; other site 357348006912 active site 357348006913 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348006914 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 357348006915 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 357348006916 NAD(P) binding site [chemical binding]; other site 357348006917 homotetramer interface [polypeptide binding]; other site 357348006918 homodimer interface [polypeptide binding]; other site 357348006919 active site 357348006920 Acyl transferase domain; Region: Acyl_transf_1; cl08282 357348006921 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 357348006922 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 357348006923 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 357348006924 dimer interface [polypeptide binding]; other site 357348006925 active site 357348006926 CoA binding pocket [chemical binding]; other site 357348006927 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 357348006928 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 357348006929 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 357348006930 Maf-like protein; Region: Maf; pfam02545 357348006931 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 357348006932 active site 357348006933 dimer interface [polypeptide binding]; other site 357348006934 Predicted methyltransferases [General function prediction only]; Region: COG0313 357348006935 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 357348006936 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 357348006937 tandem repeat interface [polypeptide binding]; other site 357348006938 oligomer interface [polypeptide binding]; other site 357348006939 active site residues [active] 357348006940 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 357348006941 iron-sulfur cluster [ion binding]; other site 357348006942 [2Fe-2S] cluster binding site [ion binding]; other site 357348006943 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 357348006944 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 357348006945 motif II; other site 357348006946 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 357348006947 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 357348006948 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 357348006949 active site 357348006950 ribonuclease E; Reviewed; Region: rne; PRK10811 357348006951 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 357348006952 homodimer interface [polypeptide binding]; other site 357348006953 oligonucleotide binding site [chemical binding]; other site 357348006954 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 357348006955 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 357348006956 FeS/SAM binding site; other site 357348006957 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 357348006958 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 357348006959 GTP binding site; other site 357348006960 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 357348006961 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 357348006962 dimer interface [polypeptide binding]; other site 357348006963 putative functional site; other site 357348006964 putative MPT binding site; other site 357348006965 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348006966 RmuC family; Region: RmuC; pfam02646 357348006967 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 357348006968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348006969 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 357348006970 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 357348006971 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 357348006972 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 357348006973 active site 357348006974 Ferredoxin [Energy production and conversion]; Region: COG1146 357348006975 4Fe-4S binding domain; Region: Fer4; cl02805 357348006976 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 357348006977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 357348006978 CreA protein; Region: CreA; pfam05981 357348006979 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 357348006980 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 357348006981 multidrug efflux protein; Reviewed; Region: PRK01766 357348006982 MatE; Region: MatE; cl10513 357348006983 MatE; Region: MatE; cl10513 357348006984 fumarate hydratase; Reviewed; Region: fumC; PRK00485 357348006985 Class II fumarases; Region: Fumarase_classII; cd01362 357348006986 active site 357348006987 tetramer interface [polypeptide binding]; other site 357348006988 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 357348006989 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 357348006990 dimerization interface [polypeptide binding]; other site 357348006991 putative DNA binding site [nucleotide binding]; other site 357348006992 putative Zn2+ binding site [ion binding]; other site 357348006993 FecR protein; Region: FecR; pfam04773 357348006994 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 357348006995 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 357348006996 dimerization interface [polypeptide binding]; other site 357348006997 active site 357348006998 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 357348006999 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 357348007000 Walker A motif; other site 357348007001 ATP binding site [chemical binding]; other site 357348007002 Walker B motif; other site 357348007003 arginine finger; other site 357348007004 Helix-turn-helix domains; Region: HTH; cl00088 357348007005 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 357348007006 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 357348007007 Walker A motif; other site 357348007008 ATP binding site [chemical binding]; other site 357348007009 Walker B motif; other site 357348007010 arginine finger; other site 357348007011 Helix-turn-helix domains; Region: HTH; cl00088 357348007012 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 357348007013 folate binding site [chemical binding]; other site 357348007014 NADP+ binding site [chemical binding]; other site 357348007015 Transposase domain (DUF772); Region: DUF772; pfam05598 357348007016 DDE superfamily endonuclease; Region: DDE_4; cl15789 357348007017 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 357348007018 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 357348007019 Protein of unknown function (DUF615); Region: DUF615; cl01147 357348007020 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 357348007021 MPT binding site; other site 357348007022 trimer interface [polypeptide binding]; other site 357348007023 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 357348007024 catalytic site [active] 357348007025 putative active site [active] 357348007026 putative substrate binding site [chemical binding]; other site 357348007027 dimer interface [polypeptide binding]; other site 357348007028 Peptidase family M48; Region: Peptidase_M48; cl12018 357348007029 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 357348007030 GTPase RsgA; Reviewed; Region: PRK00098 357348007031 RNA binding site [nucleotide binding]; other site 357348007032 homodimer interface [polypeptide binding]; other site 357348007033 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 357348007034 GTPase/Zn-binding domain interface [polypeptide binding]; other site 357348007035 GTP/Mg2+ binding site [chemical binding]; other site 357348007036 G4 box; other site 357348007037 G5 box; other site 357348007038 G1 box; other site 357348007039 Switch I region; other site 357348007040 G2 box; other site 357348007041 G3 box; other site 357348007042 Switch II region; other site 357348007043 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 357348007044 CobD/Cbib protein; Region: CobD_Cbib; cl00561 357348007045 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 357348007046 putative active site [active] 357348007047 putative CoA binding site [chemical binding]; other site 357348007048 nudix motif; other site 357348007049 metal binding site [ion binding]; metal-binding site 357348007050 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348007051 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 357348007052 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 357348007053 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 357348007054 RimM N-terminal domain; Region: RimM; pfam01782 357348007055 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 357348007056 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 357348007057 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 357348007058 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 357348007059 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 357348007060 FeS/SAM binding site; other site 357348007061 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 357348007062 Helix-turn-helix domains; Region: HTH; cl00088 357348007063 AsnC family; Region: AsnC_trans_reg; pfam01037 357348007064 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 357348007065 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348007066 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 357348007067 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 357348007068 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348007069 active site 357348007070 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 357348007071 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 357348007072 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 357348007073 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 357348007074 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 357348007075 Ligand binding site [chemical binding]; other site 357348007076 Electron transfer flavoprotein domain; Region: ETF; pfam01012 357348007077 NMT1-like family; Region: NMT1_2; cl15260 357348007078 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 357348007079 dimer interface [polypeptide binding]; other site 357348007080 conserved gate region; other site 357348007081 ABC-ATPase subunit interface; other site 357348007082 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 357348007083 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 357348007084 Walker A/P-loop; other site 357348007085 ATP binding site [chemical binding]; other site 357348007086 Q-loop/lid; other site 357348007087 ABC transporter signature motif; other site 357348007088 Walker B; other site 357348007089 D-loop; other site 357348007090 H-loop/switch region; other site 357348007091 NIL domain; Region: NIL; cl09633 357348007092 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 357348007093 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 357348007094 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 357348007095 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 357348007096 Transglycosylase SLT domain; Region: SLT_2; pfam13406 357348007097 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 357348007098 N-acetyl-D-glucosamine binding site [chemical binding]; other site 357348007099 catalytic residue [active] 357348007100 cysteine synthase B; Region: cysM; TIGR01138 357348007101 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 357348007102 dimer interface [polypeptide binding]; other site 357348007103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348007104 catalytic residue [active] 357348007105 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 357348007106 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 357348007107 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 357348007108 NADP binding site [chemical binding]; other site 357348007109 homopentamer interface [polypeptide binding]; other site 357348007110 substrate binding site [chemical binding]; other site 357348007111 active site 357348007112 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 357348007113 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 357348007114 putative ribose interaction site [chemical binding]; other site 357348007115 putative ADP binding site [chemical binding]; other site 357348007116 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 357348007117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007118 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 357348007119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007120 tetratricopeptide repeat protein; Provisional; Region: PRK11788 357348007121 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 357348007122 binding surface 357348007123 TPR motif; other site 357348007124 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 357348007125 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 357348007126 IHF dimer interface [polypeptide binding]; other site 357348007127 IHF - DNA interface [nucleotide binding]; other site 357348007128 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 357348007129 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 357348007130 RNA binding site [nucleotide binding]; other site 357348007131 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 357348007132 RNA binding site [nucleotide binding]; other site 357348007133 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 357348007134 RNA binding site [nucleotide binding]; other site 357348007135 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 357348007136 RNA binding site [nucleotide binding]; other site 357348007137 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 357348007138 RNA binding site [nucleotide binding]; other site 357348007139 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 357348007140 RNA binding site [nucleotide binding]; other site 357348007141 cytidylate kinase; Provisional; Region: cmk; PRK00023 357348007142 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 357348007143 CMP-binding site; other site 357348007144 The sites determining sugar specificity; other site 357348007145 bifunctional prephenate dehydrogenase/3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK11861 357348007146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007147 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 357348007148 hinge; other site 357348007149 active site 357348007150 Chorismate mutase type II; Region: CM_2; cl00693 357348007151 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 357348007152 Prephenate dehydratase; Region: PDT; pfam00800 357348007153 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 357348007154 putative L-Phe binding site [chemical binding]; other site 357348007155 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 357348007156 homodimer interface [polypeptide binding]; other site 357348007157 substrate-cofactor binding pocket; other site 357348007158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348007159 catalytic residue [active] 357348007160 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 357348007161 DNA gyrase subunit A; Validated; Region: PRK05560 357348007162 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 357348007163 CAP-like domain; other site 357348007164 active site 357348007165 primary dimer interface [polypeptide binding]; other site 357348007166 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 357348007167 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 357348007168 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 357348007169 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 357348007170 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 357348007171 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 357348007172 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348007173 ligand binding site [chemical binding]; other site 357348007174 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 357348007175 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 357348007176 S-adenosylmethionine binding site [chemical binding]; other site 357348007177 phosphoglycolate phosphatase; Provisional; Region: PRK13226 357348007178 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 357348007179 motif II; other site 357348007180 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 357348007181 S-adenosylmethionine binding site [chemical binding]; other site 357348007182 Helix-turn-helix domains; Region: HTH; cl00088 357348007183 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 357348007184 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 357348007185 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 357348007186 putative dimer interface [polypeptide binding]; other site 357348007187 [2Fe-2S] cluster binding site [ion binding]; other site 357348007188 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 357348007189 putative dimer interface [polypeptide binding]; other site 357348007190 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 357348007191 SLBB domain; Region: SLBB; pfam10531 357348007192 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 357348007193 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 357348007194 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 357348007195 catalytic loop [active] 357348007196 iron binding site [ion binding]; other site 357348007197 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 357348007198 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 357348007199 [4Fe-4S] binding site [ion binding]; other site 357348007200 molybdopterin cofactor binding site; other site 357348007201 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 357348007202 molybdopterin cofactor binding site; other site 357348007203 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 357348007204 hypothetical protein; Provisional; Region: PRK06184 357348007205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007206 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 357348007207 binding surface 357348007208 TPR motif; other site 357348007209 TPR repeat; Region: TPR_11; pfam13414 357348007210 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 357348007211 binding surface 357348007212 TPR motif; other site 357348007213 TPR repeat; Region: TPR_11; pfam13414 357348007214 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 357348007215 TPR motif; other site 357348007216 binding surface 357348007217 TPR repeat; Region: TPR_11; pfam13414 357348007218 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 357348007219 binding surface 357348007220 TPR motif; other site 357348007221 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 357348007222 citrate-proton symporter; Provisional; Region: PRK15075 357348007223 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 357348007224 putative substrate translocation pore; other site 357348007225 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 357348007226 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 357348007227 catalytic triad [active] 357348007228 amidase; Provisional; Region: PRK07056 357348007229 Amidase; Region: Amidase; cl11426 357348007230 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 357348007231 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 357348007232 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 357348007233 XdhC Rossmann domain; Region: XdhC_C; pfam13478 357348007234 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 357348007235 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 357348007236 active site 357348007237 purine riboside binding site [chemical binding]; other site 357348007238 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 357348007239 guanine deaminase; Provisional; Region: PRK09228 357348007240 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 357348007241 active site 357348007242 Predicted membrane protein [Function unknown]; Region: COG2119 357348007243 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 357348007244 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 357348007245 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 357348007246 aminopeptidase N; Provisional; Region: pepN; PRK14015 357348007247 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 357348007248 active site 357348007249 Zn binding site [ion binding]; other site 357348007250 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 357348007251 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 357348007252 THF binding site; other site 357348007253 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 357348007254 substrate binding site [chemical binding]; other site 357348007255 THF binding site; other site 357348007256 zinc-binding site [ion binding]; other site 357348007257 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 357348007258 Helix-turn-helix domains; Region: HTH; cl00088 357348007259 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 357348007260 putative dimerization interface [polypeptide binding]; other site 357348007261 fructose-1,6-bisphosphatase family protein; Region: PLN02628 357348007262 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 357348007263 AMP binding site [chemical binding]; other site 357348007264 metal binding site [ion binding]; metal-binding site 357348007265 active site 357348007266 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 357348007267 catalytic residues [active] 357348007268 BNR repeat-like domain; Region: BNR_2; pfam13088 357348007269 BNR repeat-like domain; Region: BNR_2; pfam13088 357348007270 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 357348007271 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 357348007272 N-terminal plug; other site 357348007273 ligand-binding site [chemical binding]; other site 357348007274 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 357348007275 Chorismate mutase type II; Region: CM_2; cl00693 357348007276 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 357348007277 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 357348007278 active site 357348007279 catalytic site [active] 357348007280 substrate binding site [chemical binding]; other site 357348007281 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 357348007282 GIY-YIG motif/motif A; other site 357348007283 active site 357348007284 catalytic site [active] 357348007285 putative DNA binding site [nucleotide binding]; other site 357348007286 metal binding site [ion binding]; metal-binding site 357348007287 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 357348007288 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 357348007289 DNA-binding site [nucleotide binding]; DNA binding site 357348007290 RNA-binding motif; other site 357348007291 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348007292 trimer interface [polypeptide binding]; other site 357348007293 eyelet of channel; other site 357348007294 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 357348007295 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 357348007296 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 357348007297 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 357348007298 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 357348007299 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 357348007300 synthetase active site [active] 357348007301 NTP binding site [chemical binding]; other site 357348007302 metal binding site [ion binding]; metal-binding site 357348007303 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 357348007304 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 357348007305 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 357348007306 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 357348007307 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 357348007308 catalytic site [active] 357348007309 G-X2-G-X-G-K; other site 357348007310 hypothetical protein; Provisional; Region: PRK11820 357348007311 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 357348007312 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 357348007313 ribonuclease PH; Reviewed; Region: rph; PRK00173 357348007314 Ribonuclease PH; Region: RNase_PH_bact; cd11362 357348007315 hexamer interface [polypeptide binding]; other site 357348007316 active site 357348007317 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 357348007318 active site 357348007319 dimerization interface [polypeptide binding]; other site 357348007320 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 357348007321 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 357348007322 FeS/SAM binding site; other site 357348007323 HemN C-terminal domain; Region: HemN_C; pfam06969 357348007324 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 357348007325 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 357348007326 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 357348007327 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 357348007328 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348007329 putative substrate translocation pore; other site 357348007330 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 357348007331 putative active site [active] 357348007332 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 357348007333 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 357348007334 putative ion selectivity filter; other site 357348007335 putative pore gating glutamate residue; other site 357348007336 putative H+/Cl- coupling transport residue; other site 357348007337 Septum formation topological specificity factor MinE; Region: MinE; cl00538 357348007338 cell division inhibitor MinD; Provisional; Region: PRK10818 357348007339 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 357348007340 Switch I; other site 357348007341 Switch II; other site 357348007342 septum formation inhibitor; Reviewed; Region: PRK01973 357348007343 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 357348007344 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 357348007345 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348007346 seryl-tRNA synthetase; Provisional; Region: PRK05431 357348007347 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 357348007348 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 357348007349 dimer interface [polypeptide binding]; other site 357348007350 active site 357348007351 motif 1; other site 357348007352 motif 2; other site 357348007353 motif 3; other site 357348007354 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 357348007355 recombination factor protein RarA; Reviewed; Region: PRK13342 357348007356 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 357348007357 Walker A motif; other site 357348007358 ATP binding site [chemical binding]; other site 357348007359 Walker B motif; other site 357348007360 arginine finger; other site 357348007361 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 357348007362 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 357348007363 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 357348007364 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 357348007365 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348007366 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 357348007367 thioredoxin reductase; Provisional; Region: PRK10262 357348007368 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348007369 Smr domain; Region: Smr; cl02619 357348007370 Predicted membrane protein [Function unknown]; Region: COG2860 357348007371 UPF0126 domain; Region: UPF0126; pfam03458 357348007372 UPF0126 domain; Region: UPF0126; pfam03458 357348007373 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 357348007374 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 357348007375 Walker A/P-loop; other site 357348007376 ATP binding site [chemical binding]; other site 357348007377 Q-loop/lid; other site 357348007378 ABC transporter signature motif; other site 357348007379 Walker B; other site 357348007380 D-loop; other site 357348007381 H-loop/switch region; other site 357348007382 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 357348007383 dimer interface [polypeptide binding]; other site 357348007384 conserved gate region; other site 357348007385 putative PBP binding loops; other site 357348007386 ABC-ATPase subunit interface; other site 357348007387 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 357348007388 dimer interface [polypeptide binding]; other site 357348007389 conserved gate region; other site 357348007390 putative PBP binding loops; other site 357348007391 ABC-ATPase subunit interface; other site 357348007392 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 357348007393 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 357348007394 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 357348007395 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 357348007396 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 357348007397 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 357348007398 putative active site [active] 357348007399 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 357348007400 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 357348007401 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 357348007402 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 357348007403 putative active site [active] 357348007404 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 357348007405 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 357348007406 substrate binding pocket [chemical binding]; other site 357348007407 membrane-bound complex binding site; other site 357348007408 hinge residues; other site 357348007409 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 357348007410 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 357348007411 dimer interface [polypeptide binding]; other site 357348007412 conserved gate region; other site 357348007413 putative PBP binding loops; other site 357348007414 ABC-ATPase subunit interface; other site 357348007415 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 357348007416 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 357348007417 Walker A/P-loop; other site 357348007418 ATP binding site [chemical binding]; other site 357348007419 Q-loop/lid; other site 357348007420 ABC transporter signature motif; other site 357348007421 Walker B; other site 357348007422 D-loop; other site 357348007423 H-loop/switch region; other site 357348007424 D-cysteine desulfhydrase; Validated; Region: PRK03910 357348007425 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 357348007426 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348007427 catalytic residue [active] 357348007428 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 357348007429 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 357348007430 putative substrate translocation pore; other site 357348007431 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 357348007432 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 357348007433 inhibitor-cofactor binding pocket; inhibition site 357348007434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348007435 catalytic residue [active] 357348007436 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 357348007437 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 357348007438 catalytic motif [active] 357348007439 Zn binding site [ion binding]; other site 357348007440 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 357348007441 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 357348007442 Lumazine binding domain; Region: Lum_binding; pfam00677 357348007443 Lumazine binding domain; Region: Lum_binding; pfam00677 357348007444 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 357348007445 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 357348007446 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 357348007447 dimerization interface [polypeptide binding]; other site 357348007448 active site 357348007449 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 357348007450 homopentamer interface [polypeptide binding]; other site 357348007451 active site 357348007452 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 357348007453 putative RNA binding site [nucleotide binding]; other site 357348007454 aminotransferase; Validated; Region: PRK07337 357348007455 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 357348007456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348007457 homodimer interface [polypeptide binding]; other site 357348007458 catalytic residue [active] 357348007459 murein transglycosylase C; Provisional; Region: mltC; PRK11671 357348007460 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 357348007461 N-acetyl-D-glucosamine binding site [chemical binding]; other site 357348007462 catalytic residue [active] 357348007463 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 357348007464 LysE type translocator; Region: LysE; cl00565 357348007465 serine racemase; Region: PLN02970 357348007466 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 357348007467 tetramer interface [polypeptide binding]; other site 357348007468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348007469 catalytic residue [active] 357348007470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007472 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 357348007473 YGGT family; Region: YGGT; cl00508 357348007474 YGGT family; Region: YGGT; cl00508 357348007475 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 357348007476 CrcB-like protein; Region: CRCB; cl09114 357348007477 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 357348007478 active site 357348007479 catalytic triad [active] 357348007480 calcium binding site [ion binding]; other site 357348007481 Methyltransferase domain; Region: Methyltransf_31; pfam13847 357348007482 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 357348007483 S-adenosylmethionine binding site [chemical binding]; other site 357348007484 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 357348007485 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 357348007486 S-adenosylmethionine binding site [chemical binding]; other site 357348007487 Bacitracin resistance protein BacA; Region: BacA; cl00858 357348007488 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 357348007489 Flagellin N-methylase; Region: FliB; cl00497 357348007490 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 357348007491 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 357348007492 FeS/SAM binding site; other site 357348007493 HemN C-terminal domain; Region: HemN_C; pfam06969 357348007494 Transposase domain (DUF772); Region: DUF772; pfam05598 357348007495 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 357348007496 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 357348007497 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348007498 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 357348007499 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 357348007500 active site residue [active] 357348007501 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 357348007502 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 357348007503 inhibitor-cofactor binding pocket; inhibition site 357348007504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348007505 catalytic residue [active] 357348007506 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 357348007507 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 357348007508 putative ligand binding site [chemical binding]; other site 357348007509 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 357348007510 TM-ABC transporter signature motif; other site 357348007511 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 357348007512 TM-ABC transporter signature motif; other site 357348007513 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 357348007514 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 357348007515 Walker A/P-loop; other site 357348007516 ATP binding site [chemical binding]; other site 357348007517 Q-loop/lid; other site 357348007518 ABC transporter signature motif; other site 357348007519 Walker B; other site 357348007520 D-loop; other site 357348007521 H-loop/switch region; other site 357348007522 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 357348007523 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 357348007524 Walker A/P-loop; other site 357348007525 ATP binding site [chemical binding]; other site 357348007526 Q-loop/lid; other site 357348007527 ABC transporter signature motif; other site 357348007528 Walker B; other site 357348007529 D-loop; other site 357348007530 H-loop/switch region; other site 357348007531 UreD urease accessory protein; Region: UreD; cl00530 357348007532 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 357348007533 alpha-gamma subunit interface [polypeptide binding]; other site 357348007534 beta-gamma subunit interface [polypeptide binding]; other site 357348007535 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 357348007536 gamma-beta subunit interface [polypeptide binding]; other site 357348007537 alpha-beta subunit interface [polypeptide binding]; other site 357348007538 urease subunit alpha; Reviewed; Region: ureC; PRK13207 357348007539 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 357348007540 subunit interactions [polypeptide binding]; other site 357348007541 active site 357348007542 flap region; other site 357348007543 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 357348007544 dimer interface [polypeptide binding]; other site 357348007545 catalytic residues [active] 357348007546 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 357348007547 UreF; Region: UreF; pfam01730 357348007548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348007549 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 357348007550 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 357348007551 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 357348007552 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 357348007553 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 357348007554 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 357348007555 putative active site [active] 357348007556 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 357348007557 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 357348007558 active site 357348007559 substrate binding site [chemical binding]; other site 357348007560 metal binding site [ion binding]; metal-binding site 357348007561 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 357348007562 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 357348007563 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 357348007564 active site 357348007565 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 357348007566 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 357348007567 putative ADP-binding pocket [chemical binding]; other site 357348007568 UDP-glucose 4-epimerase; Region: PLN02240 357348007569 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 357348007570 NAD binding site [chemical binding]; other site 357348007571 homodimer interface [polypeptide binding]; other site 357348007572 active site 357348007573 substrate binding site [chemical binding]; other site 357348007574 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 357348007575 Mg++ binding site [ion binding]; other site 357348007576 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 357348007577 putative catalytic motif [active] 357348007578 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 357348007579 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 357348007580 NAD(P) binding site [chemical binding]; other site 357348007581 homodimer interface [polypeptide binding]; other site 357348007582 substrate binding site [chemical binding]; other site 357348007583 active site 357348007584 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 357348007585 Mg++ binding site [ion binding]; other site 357348007586 putative catalytic motif [active] 357348007587 putative substrate binding site [chemical binding]; other site 357348007588 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 357348007589 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 357348007590 putative NAD(P) binding site [chemical binding]; other site 357348007591 active site 357348007592 putative substrate binding site [chemical binding]; other site 357348007593 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 357348007594 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 357348007595 active site 357348007596 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 357348007597 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 357348007598 Probable Catalytic site; other site 357348007599 metal-binding site 357348007600 mycofactocin system glycosyltransferase; Region: mycofact_glyco; TIGR03965 357348007601 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 357348007602 active site 357348007603 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348007604 mycofactocin system glycosyltransferase; Region: mycofact_glyco; TIGR03965 357348007605 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 357348007606 active site 357348007607 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 357348007608 Probable Catalytic site; other site 357348007609 metal-binding site 357348007610 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 357348007611 extended (e) SDRs; Region: SDR_e; cd08946 357348007612 NAD(P) binding site [chemical binding]; other site 357348007613 active site 357348007614 substrate binding site [chemical binding]; other site 357348007615 OpgC protein; Region: OpgC_C; cl00792 357348007616 Acyltransferase family; Region: Acyl_transf_3; pfam01757 357348007617 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 357348007618 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 357348007619 Walker A/P-loop; other site 357348007620 ATP binding site [chemical binding]; other site 357348007621 Q-loop/lid; other site 357348007622 ABC transporter signature motif; other site 357348007623 Walker B; other site 357348007624 D-loop; other site 357348007625 H-loop/switch region; other site 357348007626 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 357348007627 putative carbohydrate binding site [chemical binding]; other site 357348007628 ABC-2 type transporter; Region: ABC2_membrane; cl11417 357348007629 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 357348007630 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 357348007631 NADP binding site [chemical binding]; other site 357348007632 active site 357348007633 putative substrate binding site [chemical binding]; other site 357348007634 Cupin domain; Region: Cupin_2; cl09118 357348007635 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 357348007636 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 357348007637 substrate binding site; other site 357348007638 tetramer interface; other site 357348007639 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 357348007640 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 357348007641 NAD binding site [chemical binding]; other site 357348007642 substrate binding site [chemical binding]; other site 357348007643 homodimer interface [polypeptide binding]; other site 357348007644 active site 357348007645 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 357348007646 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 357348007647 active site 357348007648 metal binding site [ion binding]; metal-binding site 357348007649 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 357348007650 putative acyl-acceptor binding pocket; other site 357348007651 dihydroorotase; Provisional; Region: PRK07627 357348007652 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 357348007653 active site 357348007654 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 357348007655 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 357348007656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007657 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 357348007658 active site 357348007659 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 357348007660 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 357348007661 Rubredoxin [Energy production and conversion]; Region: COG1773 357348007662 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 357348007663 iron binding site [ion binding]; other site 357348007664 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 357348007665 dimer interface [polypeptide binding]; other site 357348007666 substrate binding site [chemical binding]; other site 357348007667 ATP binding site [chemical binding]; other site 357348007668 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 357348007669 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 357348007670 ring oligomerisation interface [polypeptide binding]; other site 357348007671 ATP/Mg binding site [chemical binding]; other site 357348007672 stacking interactions; other site 357348007673 hinge regions; other site 357348007674 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 357348007675 oligomerisation interface [polypeptide binding]; other site 357348007676 mobile loop; other site 357348007677 roof hairpin; other site 357348007678 Helix-turn-helix domains; Region: HTH; cl00088 357348007679 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 357348007680 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 357348007681 putative NAD(P) binding site [chemical binding]; other site 357348007682 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 357348007683 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 357348007684 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 357348007685 Helix-turn-helix domains; Region: HTH; cl00088 357348007686 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348007687 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 357348007688 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 357348007689 non-specific DNA binding site [nucleotide binding]; other site 357348007690 salt bridge; other site 357348007691 sequence-specific DNA binding site [nucleotide binding]; other site 357348007692 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348007693 LysE type translocator; Region: LysE; cl00565 357348007694 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 357348007695 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 357348007696 putative active site [active] 357348007697 catalytic site [active] 357348007698 putative metal binding site [ion binding]; other site 357348007699 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348007700 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 357348007701 putative substrate translocation pore; other site 357348007702 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 357348007703 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 357348007704 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 357348007705 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 357348007706 BON domain; Region: BON; cl02771 357348007707 NMT1-like family; Region: NMT1_2; cl15260 357348007708 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 357348007709 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 357348007710 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 357348007711 putative catalytic residue [active] 357348007712 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348007713 Helix-turn-helix domains; Region: HTH; cl00088 357348007714 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 357348007715 dimerization interface [polypeptide binding]; other site 357348007716 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 357348007717 dimer interface [polypeptide binding]; other site 357348007718 putative PBP binding regions; other site 357348007719 ABC-ATPase subunit interface; other site 357348007720 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 357348007721 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 357348007722 putative ligand binding residues [chemical binding]; other site 357348007723 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 357348007724 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 357348007725 Walker A/P-loop; other site 357348007726 ATP binding site [chemical binding]; other site 357348007727 Q-loop/lid; other site 357348007728 ABC transporter signature motif; other site 357348007729 Walker B; other site 357348007730 D-loop; other site 357348007731 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 357348007732 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 357348007733 N-terminal plug; other site 357348007734 ligand-binding site [chemical binding]; other site 357348007735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 357348007736 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 357348007737 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 357348007738 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 357348007739 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 357348007740 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 357348007741 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 357348007742 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 357348007743 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 357348007744 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 357348007745 major facilitator superfamily transporter; Provisional; Region: PRK05122 357348007746 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 357348007747 putative substrate translocation pore; other site 357348007748 EamA-like transporter family; Region: EamA; cl01037 357348007749 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 357348007750 EamA-like transporter family; Region: EamA; cl01037 357348007751 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 357348007752 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 357348007753 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 357348007754 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348007755 catalytic residue [active] 357348007756 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348007757 Helix-turn-helix domains; Region: HTH; cl00088 357348007758 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348007759 putative effector binding pocket; other site 357348007760 dimerization interface [polypeptide binding]; other site 357348007761 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 357348007762 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 357348007763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007764 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 357348007765 putative FMN binding site [chemical binding]; other site 357348007766 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 357348007767 putative substrate translocation pore; other site 357348007768 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 357348007769 putative substrate translocation pore; other site 357348007770 fumarylacetoacetase; Region: PLN02856 357348007771 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 357348007772 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 357348007773 Cupin domain; Region: Cupin_2; cl09118 357348007774 benzoate transport; Region: 2A0115; TIGR00895 357348007775 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 357348007776 putative substrate translocation pore; other site 357348007777 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 357348007778 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 357348007779 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 357348007780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007781 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348007782 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 357348007783 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 357348007784 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348007785 Helix-turn-helix domains; Region: HTH; cl00088 357348007786 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 357348007787 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348007788 FAD binding site [chemical binding]; other site 357348007789 substrate binding pocket [chemical binding]; other site 357348007790 catalytic base [active] 357348007791 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 357348007792 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 357348007793 dimer interface [polypeptide binding]; other site 357348007794 decamer (pentamer of dimers) interface [polypeptide binding]; other site 357348007795 catalytic triad [active] 357348007796 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 357348007797 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 357348007798 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 357348007799 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 357348007800 Type II transport protein GspH; Region: GspH; pfam12019 357348007801 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 357348007802 ATP cone domain; Region: ATP-cone; pfam03477 357348007803 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 357348007804 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 357348007805 dimer interface [polypeptide binding]; other site 357348007806 active site 357348007807 glycine-pyridoxal phosphate binding site [chemical binding]; other site 357348007808 folate binding site [chemical binding]; other site 357348007809 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 357348007810 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 357348007811 putative NAD(P) binding site [chemical binding]; other site 357348007812 homodimer interface [polypeptide binding]; other site 357348007813 homotetramer interface [polypeptide binding]; other site 357348007814 active site 357348007815 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 357348007816 active site 357348007817 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 357348007818 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 357348007819 Gram-negative bacterial tonB protein; Region: TonB; cl10048 357348007820 translocation protein TolB; Provisional; Region: tolB; PRK02889 357348007821 TolB amino-terminal domain; Region: TolB_N; cl00639 357348007822 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 357348007823 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 357348007824 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 357348007825 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 357348007826 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348007827 ligand binding site [chemical binding]; other site 357348007828 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 357348007829 Tetratricopeptide repeat; Region: TPR_6; pfam13174 357348007830 Tetratricopeptide repeat; Region: TPR_6; pfam13174 357348007831 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 357348007832 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 357348007833 active site 357348007834 tetramer interface; other site 357348007835 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 357348007836 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 357348007837 putative active site [active] 357348007838 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 357348007839 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348007840 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 357348007841 NeuB family; Region: NeuB; cl00496 357348007842 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 357348007843 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 357348007844 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 357348007845 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 357348007846 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 357348007847 trimer interface [polypeptide binding]; other site 357348007848 active site 357348007849 substrate binding site [chemical binding]; other site 357348007850 CoA binding site [chemical binding]; other site 357348007851 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 357348007852 tyrosine kinase; Provisional; Region: PRK11519 357348007853 Chain length determinant protein; Region: Wzz; cl15801 357348007854 Chain length determinant protein; Region: Wzz; cl15801 357348007855 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 357348007856 Nucleotide binding site [chemical binding]; other site 357348007857 Low molecular weight phosphatase family; Region: LMWPc; cd00115 357348007858 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 357348007859 active site 357348007860 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 357348007861 polysaccharide export protein Wza; Provisional; Region: PRK15078 357348007862 CoA-binding domain; Region: CoA_binding_3; pfam13727 357348007863 Bacterial sugar transferase; Region: Bac_transf; cl00939 357348007864 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 357348007865 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 357348007866 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348007867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348007868 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 357348007869 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348007870 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 357348007871 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 357348007872 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348007873 catalytic residue [active] 357348007874 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 357348007875 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 357348007876 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 357348007877 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348007878 active site 357348007879 Acyl transferase domain; Region: Acyl_transf_1; cl08282 357348007880 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 357348007881 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348007882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007883 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 357348007884 Enoylreductase; Region: PKS_ER; smart00829 357348007885 NAD(P) binding site [chemical binding]; other site 357348007886 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 357348007887 putative NADP binding site [chemical binding]; other site 357348007888 active site 357348007889 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348007890 Sulfatase; Region: Sulfatase; cl10460 357348007891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007892 NAD(P) binding site [chemical binding]; other site 357348007893 active site 357348007894 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 357348007895 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 357348007896 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 357348007897 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 357348007898 active site 357348007899 motif I; other site 357348007900 motif II; other site 357348007901 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 357348007902 Substrate binding site; other site 357348007903 Mg++ binding site; other site 357348007904 metal-binding site 357348007905 Mg++ binding site; other site 357348007906 metal-binding site 357348007907 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 357348007908 dimer interface [polypeptide binding]; other site 357348007909 active site 357348007910 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 357348007911 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 357348007912 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 357348007913 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 357348007914 NADP-binding site; other site 357348007915 homotetramer interface [polypeptide binding]; other site 357348007916 substrate binding site [chemical binding]; other site 357348007917 homodimer interface [polypeptide binding]; other site 357348007918 active site 357348007919 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 357348007920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348007921 NAD(P) binding site [chemical binding]; other site 357348007922 active site 357348007923 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 357348007924 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 357348007925 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 357348007926 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 357348007927 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 357348007928 ABC-2 type transporter; Region: ABC2_membrane; cl11417 357348007929 phosphomannomutase CpsG; Provisional; Region: PRK15414 357348007930 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 357348007931 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 357348007932 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 357348007933 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 357348007934 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 357348007935 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 357348007936 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 357348007937 Substrate binding site; other site 357348007938 Cupin domain; Region: Cupin_2; cl09118 357348007939 TIGR03442 family protein; Region: TIGR03442 357348007940 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 357348007941 putative active site [active] 357348007942 putative dimer interface [polypeptide binding]; other site 357348007943 mechanosensitive channel MscS; Provisional; Region: PRK10334 357348007944 Mechanosensitive ion channel; Region: MS_channel; pfam00924 357348007945 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 357348007946 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 357348007947 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 357348007948 ATP binding site [chemical binding]; other site 357348007949 Mg2+ binding site [ion binding]; other site 357348007950 G-X-G motif; other site 357348007951 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 357348007952 ATP binding site [chemical binding]; other site 357348007953 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 357348007954 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348007955 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 357348007956 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 357348007957 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 357348007958 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 357348007959 dimerization interface [polypeptide binding]; other site 357348007960 putative ATP binding site [chemical binding]; other site 357348007961 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348007962 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 357348007963 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 357348007964 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348007965 poly(A) polymerase; Region: pcnB; TIGR01942 357348007966 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 357348007967 active site 357348007968 NTP binding site [chemical binding]; other site 357348007969 metal binding triad [ion binding]; metal-binding site 357348007970 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 357348007971 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 357348007972 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 357348007973 catalytic center binding site [active] 357348007974 ATP binding site [chemical binding]; other site 357348007975 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 357348007976 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 357348007977 Substrate-binding site [chemical binding]; other site 357348007978 Substrate specificity [chemical binding]; other site 357348007979 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 357348007980 oligomerization interface [polypeptide binding]; other site 357348007981 active site 357348007982 metal binding site [ion binding]; metal-binding site 357348007983 chorismate binding enzyme; Region: Chorismate_bind; cl10555 357348007984 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 357348007985 homodimer interface [polypeptide binding]; other site 357348007986 substrate-cofactor binding pocket; other site 357348007987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348007988 catalytic residue [active] 357348007989 chaperone protein DnaJ; Provisional; Region: PRK10767 357348007990 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 357348007991 HSP70 interaction site [polypeptide binding]; other site 357348007992 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 357348007993 Zn binding sites [ion binding]; other site 357348007994 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 357348007995 dimer interface [polypeptide binding]; other site 357348007996 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 357348007997 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 357348007998 catalytic residues [active] 357348007999 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 357348008000 dimer interface [polypeptide binding]; other site 357348008001 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 357348008002 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 357348008003 RNA binding surface [nucleotide binding]; other site 357348008004 ferrochelatase; Reviewed; Region: hemH; PRK00035 357348008005 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 357348008006 C-terminal domain interface [polypeptide binding]; other site 357348008007 active site 357348008008 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 357348008009 active site 357348008010 N-terminal domain interface [polypeptide binding]; other site 357348008011 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 357348008012 Helix-turn-helix domains; Region: HTH; cl00088 357348008013 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 357348008014 recombination and repair protein; Provisional; Region: PRK10869 357348008015 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 357348008016 Walker A/P-loop; other site 357348008017 ATP binding site [chemical binding]; other site 357348008018 Q-loop/lid; other site 357348008019 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 357348008020 ABC transporter signature motif; other site 357348008021 Walker B; other site 357348008022 D-loop; other site 357348008023 H-loop/switch region; other site 357348008024 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 357348008025 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 357348008026 metal binding triad; other site 357348008027 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 357348008028 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 357348008029 metal binding triad; other site 357348008030 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 357348008031 TIGR02099 family protein; Region: TIGR02099 357348008032 AsmA-like C-terminal region; Region: AsmA_2; cl15864 357348008033 Predicted amidohydrolase [General function prediction only]; Region: COG0388 357348008034 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 357348008035 putative active site [active] 357348008036 catalytic triad [active] 357348008037 dimer interface [polypeptide binding]; other site 357348008038 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 357348008039 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 357348008040 NeuB family; Region: NeuB; cl00496 357348008041 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 357348008042 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 357348008043 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 357348008044 heme-binding site [chemical binding]; other site 357348008045 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 357348008046 FAD binding pocket [chemical binding]; other site 357348008047 FAD binding motif [chemical binding]; other site 357348008048 phosphate binding motif [ion binding]; other site 357348008049 beta-alpha-beta structure motif; other site 357348008050 NAD binding pocket [chemical binding]; other site 357348008051 Heme binding pocket [chemical binding]; other site 357348008052 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 357348008053 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 357348008054 FAD binding domain; Region: FAD_binding_4; pfam01565 357348008055 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 357348008056 FAD binding domain; Region: FAD_binding_4; pfam01565 357348008057 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 357348008058 FAD binding domain; Region: FAD_binding_4; pfam01565 357348008059 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 357348008060 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 357348008061 Cysteine-rich domain; Region: CCG; pfam02754 357348008062 Cysteine-rich domain; Region: CCG; pfam02754 357348008063 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 357348008064 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 357348008065 catalytic residue [active] 357348008066 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 357348008067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348008068 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 357348008069 dimer interface [polypeptide binding]; other site 357348008070 conserved gate region; other site 357348008071 ABC-ATPase subunit interface; other site 357348008072 NMT1-like family; Region: NMT1_2; cl15260 357348008073 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 357348008074 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 357348008075 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348008076 Walker A/P-loop; other site 357348008077 ATP binding site [chemical binding]; other site 357348008078 Q-loop/lid; other site 357348008079 ABC transporter signature motif; other site 357348008080 Walker B; other site 357348008081 D-loop; other site 357348008082 H-loop/switch region; other site 357348008083 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 357348008084 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 357348008085 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 357348008086 active site 357348008087 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 357348008088 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348008089 Walker A/P-loop; other site 357348008090 ATP binding site [chemical binding]; other site 357348008091 Q-loop/lid; other site 357348008092 ABC transporter signature motif; other site 357348008093 Walker B; other site 357348008094 D-loop; other site 357348008095 H-loop/switch region; other site 357348008096 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 357348008097 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 357348008098 Walker A/P-loop; other site 357348008099 ATP binding site [chemical binding]; other site 357348008100 Q-loop/lid; other site 357348008101 ABC transporter signature motif; other site 357348008102 Walker B; other site 357348008103 D-loop; other site 357348008104 H-loop/switch region; other site 357348008105 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 357348008106 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 357348008107 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 357348008108 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 357348008109 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 357348008110 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 357348008111 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348008112 DNA-binding site [nucleotide binding]; DNA binding site 357348008113 UTRA domain; Region: UTRA; cl01230 357348008114 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 357348008115 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348008116 active site 357348008117 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348008118 UbiA prenyltransferase family; Region: UbiA; cl00337 357348008119 Helix-turn-helix domains; Region: HTH; cl00088 357348008120 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 357348008121 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 357348008122 dimerization interface [polypeptide binding]; other site 357348008123 DPS ferroxidase diiron center [ion binding]; other site 357348008124 ion pore; other site 357348008125 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 357348008126 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 357348008127 dimer interface [polypeptide binding]; other site 357348008128 active site 357348008129 heme binding site [chemical binding]; other site 357348008130 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 357348008131 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348008132 Helix-turn-helix domains; Region: HTH; cl00088 357348008133 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 357348008134 dimerization interface [polypeptide binding]; other site 357348008135 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 357348008136 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 357348008137 generic binding surface II; other site 357348008138 ssDNA binding site; other site 357348008139 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 357348008140 ATP binding site [chemical binding]; other site 357348008141 putative Mg++ binding site [ion binding]; other site 357348008142 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 357348008143 nucleotide binding region [chemical binding]; other site 357348008144 ATP-binding site [chemical binding]; other site 357348008145 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 357348008146 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 357348008147 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 357348008148 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 357348008149 Preprotein translocase subunit; Region: YajC; cl00806 357348008150 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 357348008151 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 357348008152 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 357348008153 Protein export membrane protein; Region: SecD_SecF; cl14618 357348008154 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 357348008155 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 357348008156 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 357348008157 Protein export membrane protein; Region: SecD_SecF; cl14618 357348008158 citrate-proton symporter; Provisional; Region: PRK15075 357348008159 YceI-like domain; Region: YceI; cl01001 357348008160 YceI-like domain; Region: YceI; cl01001 357348008161 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 357348008162 Paraquat-inducible protein A; Region: PqiA; pfam04403 357348008163 Paraquat-inducible protein A; Region: PqiA; pfam04403 357348008164 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 357348008165 mce related protein; Region: MCE; pfam02470 357348008166 mce related protein; Region: MCE; pfam02470 357348008167 Protein of unknown function (DUF330); Region: DUF330; cl01135 357348008168 Site-specific recombinase; Region: SpecificRecomb; cl15411 357348008169 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 357348008170 THUMP domain; Region: THUMP; cl12076 357348008171 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348008172 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 357348008173 Helix-turn-helix domains; Region: HTH; cl00088 357348008174 WYL domain; Region: WYL; cl14852 357348008175 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 357348008176 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 357348008177 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 357348008178 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 357348008179 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 357348008180 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 357348008181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348008182 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 357348008183 nudix motif; other site 357348008184 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 357348008185 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 357348008186 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 357348008187 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 357348008188 active site 357348008189 FMN binding site [chemical binding]; other site 357348008190 substrate binding site [chemical binding]; other site 357348008191 3Fe-4S cluster binding site [ion binding]; other site 357348008192 Transposase domain (DUF772); Region: DUF772; pfam05598 357348008193 DDE superfamily endonuclease; Region: DDE_4; cl15789 357348008194 putative glutathione S-transferase; Provisional; Region: PRK10357 357348008195 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 357348008196 putative C-terminal domain interface [polypeptide binding]; other site 357348008197 putative GSH binding site (G-site) [chemical binding]; other site 357348008198 putative dimer interface [polypeptide binding]; other site 357348008199 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 357348008200 dimer interface [polypeptide binding]; other site 357348008201 N-terminal domain interface [polypeptide binding]; other site 357348008202 putative substrate binding pocket (H-site) [chemical binding]; other site 357348008203 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 357348008204 proline aminopeptidase P II; Provisional; Region: PRK10879 357348008205 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 357348008206 active site 357348008207 hypothetical protein; Provisional; Region: PRK06996 357348008208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348008209 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 357348008210 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 357348008211 FMN binding site [chemical binding]; other site 357348008212 active site 357348008213 catalytic residues [active] 357348008214 substrate binding site [chemical binding]; other site 357348008215 Helix-turn-helix domains; Region: HTH; cl00088 357348008216 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 357348008217 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 357348008218 purine monophosphate binding site [chemical binding]; other site 357348008219 dimer interface [polypeptide binding]; other site 357348008220 putative catalytic residues [active] 357348008221 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 357348008222 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 357348008223 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 357348008224 active site 357348008225 putative DNA-binding cleft [nucleotide binding]; other site 357348008226 dimer interface [polypeptide binding]; other site 357348008227 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 357348008228 RuvA N terminal domain; Region: RuvA_N; pfam01330 357348008229 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 357348008230 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 357348008231 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 357348008232 Walker A motif; other site 357348008233 ATP binding site [chemical binding]; other site 357348008234 Walker B motif; other site 357348008235 arginine finger; other site 357348008236 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 357348008237 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 357348008238 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 357348008239 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 357348008240 catalytic core [active] 357348008241 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 357348008242 putative active site [active] 357348008243 dimerization interface [polypeptide binding]; other site 357348008244 putative tRNAtyr binding site [nucleotide binding]; other site 357348008245 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 357348008246 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 357348008247 active site 357348008248 HIGH motif; other site 357348008249 dimer interface [polypeptide binding]; other site 357348008250 KMSKS motif; other site 357348008251 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 357348008252 RNA binding surface [nucleotide binding]; other site 357348008253 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 357348008254 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 357348008255 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 357348008256 C-terminal domain interface [polypeptide binding]; other site 357348008257 GSH binding site (G-site) [chemical binding]; other site 357348008258 dimer interface [polypeptide binding]; other site 357348008259 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 357348008260 N-terminal domain interface [polypeptide binding]; other site 357348008261 putative dimer interface [polypeptide binding]; other site 357348008262 active site 357348008263 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 357348008264 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 357348008265 C-terminal domain interface [polypeptide binding]; other site 357348008266 GSH binding site (G-site) [chemical binding]; other site 357348008267 dimer interface [polypeptide binding]; other site 357348008268 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 357348008269 N-terminal domain interface [polypeptide binding]; other site 357348008270 dimer interface [polypeptide binding]; other site 357348008271 substrate binding pocket (H-site) [chemical binding]; other site 357348008272 Cupin domain; Region: Cupin_2; cl09118 357348008273 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 357348008274 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 357348008275 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 357348008276 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 357348008277 23S rRNA interface [nucleotide binding]; other site 357348008278 L3 interface [polypeptide binding]; other site 357348008279 OsmC-like protein; Region: OsmC; cl00767 357348008280 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 357348008281 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 357348008282 active site 357348008283 substrate binding pocket [chemical binding]; other site 357348008284 dimer interface [polypeptide binding]; other site 357348008285 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 357348008286 Glutamine amidotransferases class-II; Region: GATase_2; pfam00310 357348008287 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 357348008288 putative dimer interface [polypeptide binding]; other site 357348008289 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 357348008290 putative dimer interface [polypeptide binding]; other site 357348008291 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 357348008292 oligomerisation interface [polypeptide binding]; other site 357348008293 mobile loop; other site 357348008294 roof hairpin; other site 357348008295 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 357348008296 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 357348008297 Walker A/P-loop; other site 357348008298 ATP binding site [chemical binding]; other site 357348008299 Q-loop/lid; other site 357348008300 ABC transporter signature motif; other site 357348008301 Walker B; other site 357348008302 D-loop; other site 357348008303 H-loop/switch region; other site 357348008304 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 357348008305 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 357348008306 dimer interface [polypeptide binding]; other site 357348008307 conserved gate region; other site 357348008308 putative PBP binding loops; other site 357348008309 ABC-ATPase subunit interface; other site 357348008310 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 357348008311 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 357348008312 dimer interface [polypeptide binding]; other site 357348008313 conserved gate region; other site 357348008314 putative PBP binding loops; other site 357348008315 ABC-ATPase subunit interface; other site 357348008316 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 357348008317 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 357348008318 substrate binding pocket [chemical binding]; other site 357348008319 membrane-bound complex binding site; other site 357348008320 hinge residues; other site 357348008321 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 357348008322 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 357348008323 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 357348008324 NAD(P) binding site [chemical binding]; other site 357348008325 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 357348008326 Helix-turn-helix domains; Region: HTH; cl00088 357348008327 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 357348008328 dimerization interface [polypeptide binding]; other site 357348008329 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 357348008330 adenylosuccinate lyase; Provisional; Region: PRK09285 357348008331 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 357348008332 tetramer interface [polypeptide binding]; other site 357348008333 active site 357348008334 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 357348008335 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 357348008336 ATP-binding site [chemical binding]; other site 357348008337 Gluconate-6-phosphate binding site [chemical binding]; other site 357348008338 GntP family permease; Region: GntP_permease; pfam02447 357348008339 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 357348008340 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 357348008341 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 357348008342 active site 357348008343 intersubunit interface [polypeptide binding]; other site 357348008344 catalytic residue [active] 357348008345 Dehydratase family; Region: ILVD_EDD; cl00340 357348008346 6-phosphogluconate dehydratase; Region: edd; TIGR01196 357348008347 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 357348008348 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 357348008349 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 357348008350 putative active site [active] 357348008351 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 357348008352 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 357348008353 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 357348008354 putative catalytic cysteine [active] 357348008355 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 357348008356 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 357348008357 Lipopolysaccharide-assembly; Region: LptE; cl01125 357348008358 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 357348008359 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 357348008360 HIGH motif; other site 357348008361 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 357348008362 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348008363 active site 357348008364 KMSKS motif; other site 357348008365 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 357348008366 tRNA binding surface [nucleotide binding]; other site 357348008367 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 357348008368 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 357348008369 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 357348008370 dihydrodipicolinate reductase; Provisional; Region: PRK00048 357348008371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348008372 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 357348008373 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 357348008374 ferric uptake regulator; Provisional; Region: fur; PRK09462 357348008375 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 357348008376 metal binding site 2 [ion binding]; metal-binding site 357348008377 putative DNA binding helix; other site 357348008378 metal binding site 1 [ion binding]; metal-binding site 357348008379 dimer interface [polypeptide binding]; other site 357348008380 structural Zn2+ binding site [ion binding]; other site 357348008381 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 357348008382 allantoicase; Provisional; Region: PRK13257 357348008383 Allantoicase repeat; Region: Allantoicase; pfam03561 357348008384 Allantoicase repeat; Region: Allantoicase; pfam03561 357348008385 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 357348008386 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 357348008387 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348008388 DNA-binding site [nucleotide binding]; DNA binding site 357348008389 FCD domain; Region: FCD; cl11656 357348008390 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 357348008391 Helix-turn-helix domains; Region: HTH; cl00088 357348008392 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 357348008393 dimerization interface [polypeptide binding]; other site 357348008394 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 357348008395 active site clefts [active] 357348008396 zinc binding site [ion binding]; other site 357348008397 dimer interface [polypeptide binding]; other site 357348008398 cyanate hydratase; Validated; Region: PRK02866 357348008399 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 357348008400 oligomer interface [polypeptide binding]; other site 357348008401 active site 357348008402 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 357348008403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348008404 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 357348008405 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 357348008406 transketolase; Reviewed; Region: PRK12753 357348008407 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 357348008408 TPP-binding site [chemical binding]; other site 357348008409 dimer interface [polypeptide binding]; other site 357348008410 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 357348008411 PYR/PP interface [polypeptide binding]; other site 357348008412 dimer interface [polypeptide binding]; other site 357348008413 TPP binding site [chemical binding]; other site 357348008414 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 357348008415 spermidine synthase; Provisional; Region: PRK00811 357348008416 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348008417 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 357348008418 putative dimer interface [polypeptide binding]; other site 357348008419 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348008420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 357348008421 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 357348008422 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 357348008423 putative RNAase interaction site [polypeptide binding]; other site 357348008424 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 357348008425 active site 357348008426 barstar interaction site; other site 357348008427 malic enzyme; Reviewed; Region: PRK12862 357348008428 Malic enzyme, N-terminal domain; Region: malic; pfam00390 357348008429 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 357348008430 putative NAD(P) binding site [chemical binding]; other site 357348008431 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 357348008432 thiamine monophosphate kinase; Provisional; Region: PRK05731 357348008433 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 357348008434 ATP binding site [chemical binding]; other site 357348008435 dimerization interface [polypeptide binding]; other site 357348008436 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 357348008437 tetramer interfaces [polypeptide binding]; other site 357348008438 binuclear metal-binding site [ion binding]; other site 357348008439 Competence-damaged protein; Region: CinA; cl00666 357348008440 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 357348008441 active site 357348008442 dimer interface [polypeptide binding]; other site 357348008443 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 357348008444 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 357348008445 active site 357348008446 catalytic residues [active] 357348008447 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 357348008448 classical (c) SDRs; Region: SDR_c; cd05233 357348008449 NAD(P) binding site [chemical binding]; other site 357348008450 active site 357348008451 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 357348008452 TM-ABC transporter signature motif; other site 357348008453 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 357348008454 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 357348008455 Walker A/P-loop; other site 357348008456 ATP binding site [chemical binding]; other site 357348008457 Q-loop/lid; other site 357348008458 ABC transporter signature motif; other site 357348008459 Walker B; other site 357348008460 D-loop; other site 357348008461 H-loop/switch region; other site 357348008462 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 357348008463 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 357348008464 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 357348008465 ligand binding site [chemical binding]; other site 357348008466 short chain dehydrogenase; Provisional; Region: PRK07063 357348008467 classical (c) SDRs; Region: SDR_c; cd05233 357348008468 NAD(P) binding site [chemical binding]; other site 357348008469 active site 357348008470 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 357348008471 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 357348008472 active site 357348008473 intersubunit interface [polypeptide binding]; other site 357348008474 catalytic residue [active] 357348008475 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 357348008476 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 357348008477 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348008478 Helix-turn-helix domains; Region: HTH; cl00088 357348008479 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348008480 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 357348008481 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 357348008482 Transglycosylase; Region: Transgly; cl07896 357348008483 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 357348008484 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 357348008485 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 357348008486 shikimate binding site; other site 357348008487 NAD(P) binding site [chemical binding]; other site 357348008488 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 357348008489 RNB domain; Region: RNB; pfam00773 357348008490 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 357348008491 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348008492 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 357348008493 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 357348008494 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 357348008495 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 357348008496 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 357348008497 catalytic residues [active] 357348008498 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 357348008499 active site 357348008500 trimer interface [polypeptide binding]; other site 357348008501 dimer interface [polypeptide binding]; other site 357348008502 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 357348008503 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 357348008504 carboxyltransferase (CT) interaction site; other site 357348008505 biotinylation site [posttranslational modification]; other site 357348008506 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 357348008507 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 357348008508 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348008509 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 357348008510 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 357348008511 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 357348008512 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 357348008513 S-adenosylmethionine binding site [chemical binding]; other site 357348008514 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 357348008515 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 357348008516 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 357348008517 dimer interface [polypeptide binding]; other site 357348008518 catalytic triad [active] 357348008519 peroxidatic and resolving cysteines [active] 357348008520 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 357348008521 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 357348008522 substrate binding site [chemical binding]; other site 357348008523 ATP binding site [chemical binding]; other site 357348008524 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 357348008525 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 357348008526 dimer interface [polypeptide binding]; other site 357348008527 putative radical transfer pathway; other site 357348008528 diiron center [ion binding]; other site 357348008529 tyrosyl radical; other site 357348008530 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 357348008531 ATP cone domain; Region: ATP-cone; pfam03477 357348008532 Class I ribonucleotide reductase; Region: RNR_I; cd01679 357348008533 active site 357348008534 dimer interface [polypeptide binding]; other site 357348008535 catalytic residues [active] 357348008536 effector binding site; other site 357348008537 R2 peptide binding site; other site 357348008538 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 357348008539 amidase catalytic site [active] 357348008540 Zn binding residues [ion binding]; other site 357348008541 substrate binding site [chemical binding]; other site 357348008542 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 357348008543 signal recognition particle protein; Provisional; Region: PRK10867 357348008544 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 357348008545 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 357348008546 P loop; other site 357348008547 GTP binding site [chemical binding]; other site 357348008548 Signal peptide binding domain; Region: SRP_SPB; pfam02978 357348008549 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 357348008550 active site 357348008551 MarC family integral membrane protein; Region: MarC; cl00919 357348008552 prolyl-tRNA synthetase; Provisional; Region: PRK09194 357348008553 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 357348008554 dimer interface [polypeptide binding]; other site 357348008555 motif 1; other site 357348008556 active site 357348008557 motif 2; other site 357348008558 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 357348008559 putative deacylase active site [active] 357348008560 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 357348008561 active site 357348008562 motif 3; other site 357348008563 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 357348008564 anticodon binding site; other site 357348008565 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 357348008566 putative active site [active] 357348008567 Ap4A binding site [chemical binding]; other site 357348008568 nudix motif; other site 357348008569 putative metal binding site [ion binding]; other site 357348008570 CNP1-like family; Region: CNP1; pfam08750 357348008571 gamma-glutamyl kinase; Provisional; Region: PRK05429 357348008572 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 357348008573 nucleotide binding site [chemical binding]; other site 357348008574 homotetrameric interface [polypeptide binding]; other site 357348008575 putative phosphate binding site [ion binding]; other site 357348008576 putative allosteric binding site; other site 357348008577 PUA domain; Region: PUA; cl00607 357348008578 GTPase CgtA; Reviewed; Region: obgE; PRK12298 357348008579 GTP1/OBG; Region: GTP1_OBG; pfam01018 357348008580 Obg GTPase; Region: Obg; cd01898 357348008581 G1 box; other site 357348008582 GTP/Mg2+ binding site [chemical binding]; other site 357348008583 Switch I region; other site 357348008584 G2 box; other site 357348008585 G3 box; other site 357348008586 Switch II region; other site 357348008587 G4 box; other site 357348008588 G5 box; other site 357348008589 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 357348008590 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 357348008591 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 357348008592 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 357348008593 substrate binding pocket [chemical binding]; other site 357348008594 chain length determination region; other site 357348008595 substrate-Mg2+ binding site; other site 357348008596 catalytic residues [active] 357348008597 aspartate-rich region 1; other site 357348008598 active site lid residues [active] 357348008599 aspartate-rich region 2; other site 357348008600 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 357348008601 Domain of unknown function DUF21; Region: DUF21; pfam01595 357348008602 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 357348008603 Transporter associated domain; Region: CorC_HlyC; cl08393 357348008604 Type II/IV secretion system protein; Region: T2SE; pfam00437 357348008605 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 357348008606 Walker A motif; other site 357348008607 ATP binding site [chemical binding]; other site 357348008608 Walker B motif; other site 357348008609 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 357348008610 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348008611 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348008612 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 357348008613 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 357348008614 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 357348008615 CoA-binding site [chemical binding]; other site 357348008616 ATP-binding [chemical binding]; other site 357348008617 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 357348008618 Domain of unknown function (DUF329); Region: DUF329; cl01144 357348008619 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 357348008620 active site 357348008621 8-oxo-dGMP binding site [chemical binding]; other site 357348008622 nudix motif; other site 357348008623 metal binding site [ion binding]; metal-binding site 357348008624 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 357348008625 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 357348008626 Walker A motif; other site 357348008627 ATP binding site [chemical binding]; other site 357348008628 Walker B motif; other site 357348008629 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 357348008630 heterotetramer interface [polypeptide binding]; other site 357348008631 active site pocket [active] 357348008632 cleavage site 357348008633 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 357348008634 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348008635 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 357348008636 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 357348008637 nucleotide binding region [chemical binding]; other site 357348008638 ATP-binding site [chemical binding]; other site 357348008639 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 357348008640 SEC-C motif; Region: SEC-C; pfam02810 357348008641 Protein of unknown function (DUF721); Region: DUF721; cl02324 357348008642 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 357348008643 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 357348008644 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 357348008645 catalytic triad [active] 357348008646 dimer interface [polypeptide binding]; other site 357348008647 cell division protein FtsZ; Validated; Region: PRK09330 357348008648 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 357348008649 nucleotide binding site [chemical binding]; other site 357348008650 SulA interaction site; other site 357348008651 cell division protein FtsA; Region: ftsA; TIGR01174 357348008652 Cell division protein FtsA; Region: FtsA; cl11496 357348008653 Cell division protein FtsA; Region: FtsA; cl11496 357348008654 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 357348008655 Cell division protein FtsQ; Region: FtsQ; pfam03799 357348008656 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 357348008657 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 357348008658 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348008659 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 357348008660 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 357348008661 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 357348008662 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 357348008663 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 357348008664 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 357348008665 active site 357348008666 homodimer interface [polypeptide binding]; other site 357348008667 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 357348008668 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 357348008669 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 357348008670 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 357348008671 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 357348008672 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 357348008673 Mg++ binding site [ion binding]; other site 357348008674 putative catalytic motif [active] 357348008675 putative substrate binding site [chemical binding]; other site 357348008676 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 357348008677 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 357348008678 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 357348008679 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 357348008680 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 357348008681 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 357348008682 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 357348008683 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 357348008684 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 357348008685 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348008686 Septum formation initiator; Region: DivIC; cl11433 357348008687 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 357348008688 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348008689 cell division protein MraZ; Reviewed; Region: PRK00326 357348008690 MraZ protein; Region: MraZ; pfam02381 357348008691 MraZ protein; Region: MraZ; pfam02381 357348008692 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 357348008693 diiron binding motif [ion binding]; other site 357348008694 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348008695 trimer interface [polypeptide binding]; other site 357348008696 eyelet of channel; other site 357348008697 Transposase domain (DUF772); Region: DUF772; pfam05598 357348008698 DDE superfamily endonuclease; Region: DDE_4; cl15789 357348008699 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 357348008700 AMP-binding enzyme; Region: AMP-binding; cl15778 357348008701 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348008702 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 357348008703 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 357348008704 putative [4Fe-4S] binding site [ion binding]; other site 357348008705 putative molybdopterin cofactor binding site [chemical binding]; other site 357348008706 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 357348008707 putative molybdopterin cofactor binding site; other site 357348008708 enoyl-CoA hydratase; Provisional; Region: PRK05862 357348008709 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348008710 substrate binding site [chemical binding]; other site 357348008711 oxyanion hole (OAH) forming residues; other site 357348008712 trimer interface [polypeptide binding]; other site 357348008713 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 357348008714 NAD(P) binding site [chemical binding]; other site 357348008715 catalytic residues [active] 357348008716 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 357348008717 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 357348008718 dimer interface [polypeptide binding]; other site 357348008719 active site 357348008720 enoyl-CoA hydratase; Provisional; Region: PRK08140 357348008721 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348008722 substrate binding site [chemical binding]; other site 357348008723 oxyanion hole (OAH) forming residues; other site 357348008724 trimer interface [polypeptide binding]; other site 357348008725 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 357348008726 CoenzymeA binding site [chemical binding]; other site 357348008727 subunit interaction site [polypeptide binding]; other site 357348008728 PHB binding site; other site 357348008729 AMP-binding enzyme; Region: AMP-binding; cl15778 357348008730 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 357348008731 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 357348008732 MltA specific insert domain; Region: MltA; cl08398 357348008733 3D domain; Region: 3D; cl01439 357348008734 Protein of unknown function (DUF525); Region: DUF525; cl01119 357348008735 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 357348008736 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 357348008737 substrate binding site [chemical binding]; other site 357348008738 hexamer interface [polypeptide binding]; other site 357348008739 metal binding site [ion binding]; metal-binding site 357348008740 phosphoglycolate phosphatase; Provisional; Region: PRK13222 357348008741 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 357348008742 motif II; other site 357348008743 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348008744 anthranilate synthase component I; Provisional; Region: PRK13565 357348008745 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 357348008746 chorismate binding enzyme; Region: Chorismate_bind; cl10555 357348008747 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 357348008748 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 357348008749 glutamine binding [chemical binding]; other site 357348008750 catalytic triad [active] 357348008751 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 357348008752 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 357348008753 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 357348008754 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 357348008755 active site 357348008756 ribulose/triose binding site [chemical binding]; other site 357348008757 phosphate binding site [ion binding]; other site 357348008758 substrate (anthranilate) binding pocket [chemical binding]; other site 357348008759 product (indole) binding pocket [chemical binding]; other site 357348008760 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 357348008761 putative active site [active] 357348008762 putative metal binding residues [ion binding]; other site 357348008763 signature motif; other site 357348008764 putative triphosphate binding site [ion binding]; other site 357348008765 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 357348008766 ligand binding site [chemical binding]; other site 357348008767 active site 357348008768 UGI interface [polypeptide binding]; other site 357348008769 catalytic site [active] 357348008770 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 357348008771 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 357348008772 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 357348008773 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 357348008774 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 357348008775 dimerization domain [polypeptide binding]; other site 357348008776 dimer interface [polypeptide binding]; other site 357348008777 catalytic residues [active] 357348008778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348008779 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 357348008780 GTP-binding protein YchF; Reviewed; Region: PRK09601 357348008781 YchF GTPase; Region: YchF; cd01900 357348008782 G1 box; other site 357348008783 GTP/Mg2+ binding site [chemical binding]; other site 357348008784 Switch I region; other site 357348008785 G2 box; other site 357348008786 Switch II region; other site 357348008787 G3 box; other site 357348008788 G4 box; other site 357348008789 G5 box; other site 357348008790 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 357348008791 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 357348008792 Helix-turn-helix domain; Region: HTH_18; pfam12833 357348008793 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 357348008794 Spore germination protein; Region: Spore_permease; cl15802 357348008795 Protein of unknown function (DUF419); Region: DUF419; cl15265 357348008796 Protein of unknown function (DUF419); Region: DUF419; cl15265 357348008797 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 357348008798 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 357348008799 active site 357348008800 catalytic site [active] 357348008801 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 357348008802 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 357348008803 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348008804 Walker A/P-loop; other site 357348008805 ATP binding site [chemical binding]; other site 357348008806 Q-loop/lid; other site 357348008807 ABC transporter signature motif; other site 357348008808 Walker B; other site 357348008809 D-loop; other site 357348008810 H-loop/switch region; other site 357348008811 ABC transporter; Region: ABC_tran_2; pfam12848 357348008812 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 357348008813 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 357348008814 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348008815 Isochorismatase family; Region: Isochorismatase; pfam00857 357348008816 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 357348008817 catalytic triad [active] 357348008818 conserved cis-peptide bond; other site 357348008819 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 357348008820 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 357348008821 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 357348008822 active site 357348008823 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 357348008824 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 357348008825 tRNA; other site 357348008826 putative tRNA binding site [nucleotide binding]; other site 357348008827 putative NADP binding site [chemical binding]; other site 357348008828 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 357348008829 peptide chain release factor 1; Validated; Region: prfA; PRK00591 357348008830 RF-1 domain; Region: RF-1; cl02875 357348008831 RF-1 domain; Region: RF-1; cl02875 357348008832 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 357348008833 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 357348008834 S-adenosylmethionine binding site [chemical binding]; other site 357348008835 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 357348008836 putative GSH binding site [chemical binding]; other site 357348008837 catalytic residues [active] 357348008838 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 357348008839 Flavoprotein; Region: Flavoprotein; cl08021 357348008840 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 357348008841 putative active site [active] 357348008842 metal binding site [ion binding]; metal-binding site 357348008843 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 357348008844 Spore germination protein; Region: Spore_permease; cl15802 357348008845 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 357348008846 DNA-binding site [nucleotide binding]; DNA binding site 357348008847 RNA-binding motif; other site 357348008848 putative chaperone; Provisional; Region: PRK11678 357348008849 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 357348008850 putative FMN binding site [chemical binding]; other site 357348008851 D-galactonate transporter; Region: 2A0114; TIGR00893 357348008852 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 357348008853 putative substrate translocation pore; other site 357348008854 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348008855 Helix-turn-helix domains; Region: HTH; cl00088 357348008856 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 357348008857 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348008858 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 357348008859 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 357348008860 S-adenosylmethionine binding site [chemical binding]; other site 357348008861 OpgC protein; Region: OpgC_C; cl00792 357348008862 Late embryogenesis abundant protein; Region: LEA_2; cl12118 357348008863 Peptidase family M1; Region: Peptidase_M1; pfam01433 357348008864 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 357348008865 Zn binding site [ion binding]; other site 357348008866 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 357348008867 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 357348008868 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 357348008869 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 357348008870 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39C; cd02419 357348008871 putative active site [active] 357348008872 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 357348008873 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 357348008874 Walker A/P-loop; other site 357348008875 ATP binding site [chemical binding]; other site 357348008876 Q-loop/lid; other site 357348008877 ABC transporter signature motif; other site 357348008878 Walker B; other site 357348008879 D-loop; other site 357348008880 H-loop/switch region; other site 357348008881 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 357348008882 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 357348008883 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 357348008884 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 357348008885 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 357348008886 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 357348008887 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 357348008888 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 357348008889 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 357348008890 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348008891 ligand binding site [chemical binding]; other site 357348008892 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 357348008893 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 357348008894 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 357348008895 Clp amino terminal domain; Region: Clp_N; pfam02861 357348008896 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 357348008897 Walker A motif; other site 357348008898 ATP binding site [chemical binding]; other site 357348008899 Walker B motif; other site 357348008900 arginine finger; other site 357348008901 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 357348008902 Walker A motif; other site 357348008903 ATP binding site [chemical binding]; other site 357348008904 Walker B motif; other site 357348008905 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 357348008906 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 357348008907 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 357348008908 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 357348008909 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 357348008910 Protein of unknown function (DUF796); Region: DUF796; cl01226 357348008911 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 357348008912 Protein of unknown function (DUF877); Region: DUF877; pfam05943 357348008913 Protein of unknown function (DUF770); Region: DUF770; cl01402 357348008914 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 357348008915 TPR motif; other site 357348008916 binding surface 357348008917 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 357348008918 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 357348008919 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 357348008920 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 357348008921 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 357348008922 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348008923 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 357348008924 Baseplate J-like protein; Region: Baseplate_J; cl01294 357348008925 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 357348008926 Transposase; Region: DDE_Tnp_ISL3; pfam01610 357348008927 PAAR motif; Region: PAAR_motif; cl15808 357348008928 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 357348008929 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 357348008930 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348008931 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 357348008932 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 357348008933 ATP binding site [chemical binding]; other site 357348008934 putative Mg++ binding site [ion binding]; other site 357348008935 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 357348008936 nucleotide binding region [chemical binding]; other site 357348008937 ATP-binding site [chemical binding]; other site 357348008938 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 357348008939 ATP binding site [chemical binding]; other site 357348008940 putative Mg++ binding site [ion binding]; other site 357348008941 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 357348008942 nucleotide binding region [chemical binding]; other site 357348008943 ATP-binding site [chemical binding]; other site 357348008944 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348008945 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 357348008946 cofactor binding site; other site 357348008947 DNA binding site [nucleotide binding] 357348008948 substrate interaction site [chemical binding]; other site 357348008949 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 357348008950 Domain of unknown function (DUF932); Region: DUF932; cl12129 357348008951 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 357348008952 Transposase domain (DUF772); Region: DUF772; pfam05598 357348008953 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 357348008954 Methyltransferase domain; Region: Methyltransf_27; pfam13708 357348008955 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 357348008956 non-specific DNA binding site [nucleotide binding]; other site 357348008957 salt bridge; other site 357348008958 sequence-specific DNA binding site [nucleotide binding]; other site 357348008959 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 357348008960 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348008961 Walker A motif; other site 357348008962 ATP binding site [chemical binding]; other site 357348008963 Walker B motif; other site 357348008964 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 357348008965 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 357348008966 DNA binding site [nucleotide binding] 357348008967 active site 357348008968 Int/Topo IB signature motif; other site 357348008969 Transposase domain (DUF772); Region: DUF772; pfam05598 357348008970 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 357348008971 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 357348008972 Stringent starvation protein B; Region: SspB; cl01120 357348008973 stringent starvation protein A; Provisional; Region: sspA; PRK09481 357348008974 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 357348008975 C-terminal domain interface [polypeptide binding]; other site 357348008976 putative GSH binding site (G-site) [chemical binding]; other site 357348008977 dimer interface [polypeptide binding]; other site 357348008978 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 357348008979 dimer interface [polypeptide binding]; other site 357348008980 N-terminal domain interface [polypeptide binding]; other site 357348008981 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 357348008982 cytochrome b; Provisional; Region: CYTB; MTH00145 357348008983 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 357348008984 Qi binding site; other site 357348008985 intrachain domain interface; other site 357348008986 interchain domain interface [polypeptide binding]; other site 357348008987 heme bH binding site [chemical binding]; other site 357348008988 heme bL binding site [chemical binding]; other site 357348008989 Qo binding site; other site 357348008990 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 357348008991 interchain domain interface [polypeptide binding]; other site 357348008992 intrachain domain interface; other site 357348008993 Qi binding site; other site 357348008994 Qo binding site; other site 357348008995 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 357348008996 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 357348008997 [2Fe-2S] cluster binding site [ion binding]; other site 357348008998 Uncharacterized conserved protein [Function unknown]; Region: COG0327 357348008999 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 357348009000 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 357348009001 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 357348009002 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 357348009003 protein binding site [polypeptide binding]; other site 357348009004 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 357348009005 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 357348009006 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 357348009007 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 357348009008 nucleotide binding site/active site [active] 357348009009 HIT family signature motif; other site 357348009010 catalytic residue [active] 357348009011 Predicted membrane protein [Function unknown]; Region: COG3671 357348009012 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 357348009013 metal binding site [ion binding]; metal-binding site 357348009014 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 357348009015 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 357348009016 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 357348009017 substrate binding site [chemical binding]; other site 357348009018 glutamase interaction surface [polypeptide binding]; other site 357348009019 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 357348009020 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 357348009021 catalytic residues [active] 357348009022 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 357348009023 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 357348009024 putative active site [active] 357348009025 oxyanion strand; other site 357348009026 catalytic triad [active] 357348009027 MarC family integral membrane protein; Region: MarC; cl00919 357348009028 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 357348009029 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 357348009030 putative active site pocket [active] 357348009031 4-fold oligomerization interface [polypeptide binding]; other site 357348009032 metal binding residues [ion binding]; metal-binding site 357348009033 3-fold/trimer interface [polypeptide binding]; other site 357348009034 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 357348009035 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 357348009036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348009037 homodimer interface [polypeptide binding]; other site 357348009038 catalytic residue [active] 357348009039 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 357348009040 histidinol dehydrogenase; Region: hisD; TIGR00069 357348009041 NAD binding site [chemical binding]; other site 357348009042 dimerization interface [polypeptide binding]; other site 357348009043 product binding site; other site 357348009044 substrate binding site [chemical binding]; other site 357348009045 zinc binding site [ion binding]; other site 357348009046 catalytic residues [active] 357348009047 ATP phosphoribosyltransferase; Region: HisG; cl15266 357348009048 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 357348009049 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 357348009050 hinge; other site 357348009051 active site 357348009052 BolA-like protein; Region: BolA; cl00386 357348009053 ABC-2 type transporter; Region: ABC2_membrane; cl11417 357348009054 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 357348009055 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 357348009056 Walker A/P-loop; other site 357348009057 ATP binding site [chemical binding]; other site 357348009058 Q-loop/lid; other site 357348009059 ABC transporter signature motif; other site 357348009060 Walker B; other site 357348009061 D-loop; other site 357348009062 H-loop/switch region; other site 357348009063 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 357348009064 anti sigma factor interaction site; other site 357348009065 regulatory phosphorylation site [posttranslational modification]; other site 357348009066 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 357348009067 VacJ like lipoprotein; Region: VacJ; cl01073 357348009068 mce related protein; Region: MCE; pfam02470 357348009069 Permease; Region: Permease; cl00510 357348009070 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 357348009071 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 357348009072 Walker A/P-loop; other site 357348009073 ATP binding site [chemical binding]; other site 357348009074 Q-loop/lid; other site 357348009075 ABC transporter signature motif; other site 357348009076 Walker B; other site 357348009077 D-loop; other site 357348009078 H-loop/switch region; other site 357348009079 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 357348009080 thiamine phosphate binding site [chemical binding]; other site 357348009081 active site 357348009082 pyrophosphate binding site [ion binding]; other site 357348009083 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 357348009084 ThiS interaction site; other site 357348009085 putative active site [active] 357348009086 tetramer interface [polypeptide binding]; other site 357348009087 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 357348009088 thiS-thiF/thiG interaction site; other site 357348009089 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 357348009090 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 357348009091 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 357348009092 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 357348009093 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 357348009094 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 357348009095 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 357348009096 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 357348009097 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 357348009098 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348009099 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 357348009100 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 357348009101 active site 357348009102 dimer interface [polypeptide binding]; other site 357348009103 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 357348009104 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 357348009105 active site 357348009106 FMN binding site [chemical binding]; other site 357348009107 substrate binding site [chemical binding]; other site 357348009108 3Fe-4S cluster binding site [ion binding]; other site 357348009109 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 357348009110 domain interface; other site 357348009111 Transposase IS200 like; Region: Y1_Tnp; cl00848 357348009112 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 357348009113 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 357348009114 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 357348009115 active site 357348009116 catalytic site [active] 357348009117 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 357348009118 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 357348009119 Walker A/P-loop; other site 357348009120 ATP binding site [chemical binding]; other site 357348009121 Q-loop/lid; other site 357348009122 ABC transporter signature motif; other site 357348009123 Walker B; other site 357348009124 D-loop; other site 357348009125 H-loop/switch region; other site 357348009126 TOBE domain; Region: TOBE_2; cl01440 357348009127 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 357348009128 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 357348009129 dimer interface [polypeptide binding]; other site 357348009130 conserved gate region; other site 357348009131 putative PBP binding loops; other site 357348009132 ABC-ATPase subunit interface; other site 357348009133 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 357348009134 dimer interface [polypeptide binding]; other site 357348009135 conserved gate region; other site 357348009136 putative PBP binding loops; other site 357348009137 ABC-ATPase subunit interface; other site 357348009138 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 357348009139 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 357348009140 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 357348009141 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 357348009142 Zn2+ binding site [ion binding]; other site 357348009143 Mg2+ binding site [ion binding]; other site 357348009144 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 357348009145 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 357348009146 active site 357348009147 dimer interface [polypeptide binding]; other site 357348009148 metal binding site [ion binding]; metal-binding site 357348009149 shikimate kinase; Reviewed; Region: aroK; PRK00131 357348009150 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 357348009151 ADP binding site [chemical binding]; other site 357348009152 magnesium binding site [ion binding]; other site 357348009153 putative shikimate binding site; other site 357348009154 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 357348009155 Secretin and TonB N terminus short domain; Region: STN; cl06624 357348009156 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348009157 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 357348009158 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 357348009159 Transglycosylase; Region: Transgly; cl07896 357348009160 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348009161 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 357348009162 putative iron binding site [ion binding]; other site 357348009163 diaminopimelate decarboxylase; Region: lysA; TIGR01048 357348009164 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 357348009165 active site 357348009166 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 357348009167 substrate binding site [chemical binding]; other site 357348009168 catalytic residues [active] 357348009169 dimer interface [polypeptide binding]; other site 357348009170 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 357348009171 TMAO/DMSO reductase; Reviewed; Region: PRK05363 357348009172 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 357348009173 Moco binding site; other site 357348009174 metal coordination site [ion binding]; other site 357348009175 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 357348009176 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 357348009177 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 357348009178 Cytochrome c; Region: Cytochrom_C; cl11414 357348009179 Cytochrome c; Region: Cytochrom_C; cl11414 357348009180 Predicted GTPase [General function prediction only]; Region: COG0218 357348009181 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 357348009182 G1 box; other site 357348009183 GTP/Mg2+ binding site [chemical binding]; other site 357348009184 Switch I region; other site 357348009185 G2 box; other site 357348009186 G3 box; other site 357348009187 Switch II region; other site 357348009188 G4 box; other site 357348009189 G5 box; other site 357348009190 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 357348009191 dimer interface [polypeptide binding]; other site 357348009192 active site 357348009193 aspartate-rich active site metal binding site; other site 357348009194 allosteric magnesium binding site [ion binding]; other site 357348009195 Schiff base residues; other site 357348009196 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 357348009197 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 357348009198 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 357348009199 DsbD alpha interface [polypeptide binding]; other site 357348009200 catalytic residues [active] 357348009201 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 357348009202 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 357348009203 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 357348009204 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 357348009205 alphaNTD homodimer interface [polypeptide binding]; other site 357348009206 alphaNTD - beta interaction site [polypeptide binding]; other site 357348009207 alphaNTD - beta' interaction site [polypeptide binding]; other site 357348009208 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 357348009209 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 357348009210 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 357348009211 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 357348009212 RNA binding surface [nucleotide binding]; other site 357348009213 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 357348009214 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 357348009215 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 357348009216 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 357348009217 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 357348009218 rRNA binding site [nucleotide binding]; other site 357348009219 predicted 30S ribosome binding site; other site 357348009220 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 357348009221 SecY translocase; Region: SecY; pfam00344 357348009222 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 357348009223 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 357348009224 23S rRNA binding site [nucleotide binding]; other site 357348009225 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 357348009226 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 357348009227 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 357348009228 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 357348009229 5S rRNA interface [nucleotide binding]; other site 357348009230 L27 interface [polypeptide binding]; other site 357348009231 23S rRNA interface [nucleotide binding]; other site 357348009232 L5 interface [polypeptide binding]; other site 357348009233 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 357348009234 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 357348009235 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 357348009236 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 357348009237 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 357348009238 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 357348009239 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 357348009240 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 357348009241 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 357348009242 KOW motif; Region: KOW; cl00354 357348009243 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 357348009244 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 357348009245 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 357348009246 23S rRNA interface [nucleotide binding]; other site 357348009247 putative translocon interaction site; other site 357348009248 signal recognition particle (SRP54) interaction site; other site 357348009249 L23 interface [polypeptide binding]; other site 357348009250 trigger factor interaction site; other site 357348009251 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 357348009252 23S rRNA interface [nucleotide binding]; other site 357348009253 5S rRNA interface [nucleotide binding]; other site 357348009254 putative antibiotic binding site [chemical binding]; other site 357348009255 L25 interface [polypeptide binding]; other site 357348009256 L27 interface [polypeptide binding]; other site 357348009257 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 357348009258 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 357348009259 G-X-X-G motif; other site 357348009260 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 357348009261 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 357348009262 putative translocon binding site; other site 357348009263 protein-rRNA interface [nucleotide binding]; other site 357348009264 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 357348009265 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 357348009266 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 357348009267 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 357348009268 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 357348009269 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 357348009270 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 357348009271 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 357348009272 elongation factor Tu; Reviewed; Region: PRK00049 357348009273 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 357348009274 G1 box; other site 357348009275 GEF interaction site [polypeptide binding]; other site 357348009276 GTP/Mg2+ binding site [chemical binding]; other site 357348009277 Switch I region; other site 357348009278 G2 box; other site 357348009279 G3 box; other site 357348009280 Switch II region; other site 357348009281 G4 box; other site 357348009282 G5 box; other site 357348009283 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 357348009284 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 357348009285 Antibiotic Binding Site [chemical binding]; other site 357348009286 elongation factor G; Reviewed; Region: PRK00007 357348009287 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 357348009288 G1 box; other site 357348009289 putative GEF interaction site [polypeptide binding]; other site 357348009290 GTP/Mg2+ binding site [chemical binding]; other site 357348009291 Switch I region; other site 357348009292 G2 box; other site 357348009293 G3 box; other site 357348009294 Switch II region; other site 357348009295 G4 box; other site 357348009296 G5 box; other site 357348009297 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 357348009298 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 357348009299 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 357348009300 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 357348009301 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 357348009302 S17 interaction site [polypeptide binding]; other site 357348009303 S8 interaction site; other site 357348009304 16S rRNA interaction site [nucleotide binding]; other site 357348009305 streptomycin interaction site [chemical binding]; other site 357348009306 23S rRNA interaction site [nucleotide binding]; other site 357348009307 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 357348009308 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 357348009309 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 357348009310 ATP binding site [chemical binding]; other site 357348009311 putative Mg++ binding site [ion binding]; other site 357348009312 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 357348009313 nucleotide binding region [chemical binding]; other site 357348009314 ATP-binding site [chemical binding]; other site 357348009315 RQC domain; Region: RQC; cl09632 357348009316 HRDC domain; Region: HRDC; cl02578 357348009317 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 357348009318 Transposase; Region: DDE_Tnp_ISL3; pfam01610 357348009319 Helix-turn-helix domains; Region: HTH; cl00088 357348009320 HTH-like domain; Region: HTH_21; pfam13276 357348009321 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 357348009322 Integrase core domain; Region: rve; cl01316 357348009323 Integrase core domain; Region: rve_3; cl15866 357348009324 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 357348009325 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 357348009326 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 357348009327 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 357348009328 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 357348009329 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 357348009330 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 357348009331 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 357348009332 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 357348009333 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 357348009334 DNA binding site [nucleotide binding] 357348009335 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 357348009336 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 357348009337 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 357348009338 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 357348009339 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 357348009340 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 357348009341 RPB12 interaction site [polypeptide binding]; other site 357348009342 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 357348009343 RPB11 interaction site [polypeptide binding]; other site 357348009344 RPB12 interaction site [polypeptide binding]; other site 357348009345 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 357348009346 RPB3 interaction site [polypeptide binding]; other site 357348009347 RPB1 interaction site [polypeptide binding]; other site 357348009348 RPB11 interaction site [polypeptide binding]; other site 357348009349 RPB10 interaction site [polypeptide binding]; other site 357348009350 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 357348009351 peripheral dimer interface [polypeptide binding]; other site 357348009352 core dimer interface [polypeptide binding]; other site 357348009353 L10 interface [polypeptide binding]; other site 357348009354 L11 interface [polypeptide binding]; other site 357348009355 putative EF-Tu interaction site [polypeptide binding]; other site 357348009356 putative EF-G interaction site [polypeptide binding]; other site 357348009357 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 357348009358 23S rRNA interface [nucleotide binding]; other site 357348009359 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 357348009360 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 357348009361 mRNA/rRNA interface [nucleotide binding]; other site 357348009362 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 357348009363 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 357348009364 23S rRNA interface [nucleotide binding]; other site 357348009365 L7/L12 interface [polypeptide binding]; other site 357348009366 putative thiostrepton binding site; other site 357348009367 L25 interface [polypeptide binding]; other site 357348009368 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 357348009369 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 357348009370 putative homodimer interface [polypeptide binding]; other site 357348009371 KOW motif; Region: KOW; cl00354 357348009372 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 357348009373 elongation factor Tu; Reviewed; Region: PRK00049 357348009374 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 357348009375 G1 box; other site 357348009376 GEF interaction site [polypeptide binding]; other site 357348009377 GTP/Mg2+ binding site [chemical binding]; other site 357348009378 Switch I region; other site 357348009379 G2 box; other site 357348009380 G3 box; other site 357348009381 Switch II region; other site 357348009382 G4 box; other site 357348009383 G5 box; other site 357348009384 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 357348009385 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 357348009386 Antibiotic Binding Site [chemical binding]; other site 357348009387 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 357348009388 active site 357348009389 catalytic triad [active] 357348009390 oxyanion hole [active] 357348009391 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 357348009392 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 357348009393 Phenylacetic acid degradation B; Region: PaaB; cl01371 357348009394 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 357348009395 Domain of unknown function DUF59; Region: DUF59; cl00941 357348009396 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 357348009397 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 357348009398 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 357348009399 FAD binding pocket [chemical binding]; other site 357348009400 FAD binding motif [chemical binding]; other site 357348009401 phosphate binding motif [ion binding]; other site 357348009402 beta-alpha-beta structure motif; other site 357348009403 NAD(p) ribose binding residues [chemical binding]; other site 357348009404 NAD binding pocket [chemical binding]; other site 357348009405 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 357348009406 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 357348009407 catalytic loop [active] 357348009408 iron binding site [ion binding]; other site 357348009409 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 357348009410 Protein of unknown function; Region: DUF3658; pfam12395 357348009411 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348009412 Helix-turn-helix domains; Region: HTH; cl00088 357348009413 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348009414 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348009415 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 357348009416 putative DNA binding site [nucleotide binding]; other site 357348009417 putative Zn2+ binding site [ion binding]; other site 357348009418 AsnC family; Region: AsnC_trans_reg; pfam01037 357348009419 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 357348009420 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 357348009421 dimer interface [polypeptide binding]; other site 357348009422 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 357348009423 active site 357348009424 Fe binding site [ion binding]; other site 357348009425 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 357348009426 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 357348009427 dimer interface [polypeptide binding]; other site 357348009428 PYR/PP interface [polypeptide binding]; other site 357348009429 TPP binding site [chemical binding]; other site 357348009430 substrate binding site [chemical binding]; other site 357348009431 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 357348009432 TPP-binding site; other site 357348009433 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 357348009434 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 357348009435 Malic enzyme, N-terminal domain; Region: malic; pfam00390 357348009436 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 357348009437 putative NAD(P) binding site [chemical binding]; other site 357348009438 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 357348009439 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 357348009440 active site 357348009441 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 357348009442 substrate binding site [chemical binding]; other site 357348009443 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 357348009444 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 357348009445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348009446 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 357348009447 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 357348009448 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 357348009449 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348009450 Helix-turn-helix domains; Region: HTH; cl00088 357348009451 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 357348009452 dimerization interface [polypeptide binding]; other site 357348009453 LysE type translocator; Region: LysE; cl00565 357348009454 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 357348009455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348009456 Ubiquitin-like proteins; Region: UBQ; cl00155 357348009457 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 357348009458 Protein of unknown function DUF82; Region: DUF82; pfam01927 357348009459 putative proline-specific permease; Provisional; Region: proY; PRK10580 357348009460 Spore germination protein; Region: Spore_permease; cl15802 357348009461 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 357348009462 putative transposase OrfB; Reviewed; Region: PHA02517 357348009463 HTH-like domain; Region: HTH_21; pfam13276 357348009464 Integrase core domain; Region: rve; cl01316 357348009465 Integrase core domain; Region: rve_3; cl15866 357348009466 Helix-turn-helix domains; Region: HTH; cl00088 357348009467 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 357348009468 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348009469 Surface antigen; Region: Bac_surface_Ag; cl03097 357348009470 haemagglutination activity domain; Region: Haemagg_act; cl05436 357348009471 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 357348009472 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 357348009473 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 357348009474 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 357348009475 RES domain; Region: RES; cl02411 357348009476 Helix-turn-helix domains; Region: HTH; cl00088 357348009477 HTH-like domain; Region: HTH_21; pfam13276 357348009478 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 357348009479 Integrase core domain; Region: rve; cl01316 357348009480 Integrase core domain; Region: rve_3; cl15866 357348009481 Helix-turn-helix domains; Region: HTH; cl00088 357348009482 HTH-like domain; Region: HTH_21; pfam13276 357348009483 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 357348009484 Integrase core domain; Region: rve; cl01316 357348009485 Integrase core domain; Region: rve_3; cl15866 357348009486 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 357348009487 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 357348009488 putative active site [active] 357348009489 putative metal-binding site [ion binding]; other site 357348009490 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 357348009491 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348009492 Transposase domain (DUF772); Region: DUF772; pfam05598 357348009493 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 357348009494 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 357348009495 ATP binding site [chemical binding]; other site 357348009496 putative Mg++ binding site [ion binding]; other site 357348009497 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348009498 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 357348009499 active site 357348009500 DNA binding site [nucleotide binding] 357348009501 Int/Topo IB signature motif; other site 357348009502 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 357348009503 Cytochrome c; Region: Cytochrom_C; cl11414 357348009504 outer membrane lipoprotein; Provisional; Region: PRK11023 357348009505 BON domain; Region: BON; cl02771 357348009506 BON domain; Region: BON; cl02771 357348009507 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 357348009508 dimer interface [polypeptide binding]; other site 357348009509 active site 357348009510 Restriction endonuclease; Region: Mrr_cat; cl00516 357348009511 Predicted methyltransferases [General function prediction only]; Region: COG0313 357348009512 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 357348009513 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348009514 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 357348009515 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348009516 Helix-turn-helix domains; Region: HTH; cl00088 357348009517 AsnC family; Region: AsnC_trans_reg; pfam01037 357348009518 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 357348009519 Cation efflux family; Region: Cation_efflux; cl00316 357348009520 H-NS histone family; Region: Histone_HNS; pfam00816 357348009521 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348009522 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 357348009523 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 357348009524 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 357348009525 dimerization interface [polypeptide binding]; other site 357348009526 ligand binding site [chemical binding]; other site 357348009527 Nitronate monooxygenase; Region: NMO; pfam03060 357348009528 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 357348009529 FMN binding site [chemical binding]; other site 357348009530 substrate binding site [chemical binding]; other site 357348009531 putative catalytic residue [active] 357348009532 Dienelactone hydrolase family; Region: DLH; pfam01738 357348009533 amidase; Provisional; Region: PRK07869 357348009534 Amidase; Region: Amidase; cl11426 357348009535 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 357348009536 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 357348009537 FAD binding site [chemical binding]; other site 357348009538 Membrane protein of unknown function; Region: DUF360; cl00850 357348009539 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 357348009540 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 357348009541 oligomerization interface [polypeptide binding]; other site 357348009542 active site 357348009543 NAD+ binding site [chemical binding]; other site 357348009544 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 357348009545 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348009546 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 357348009547 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 357348009548 DNA binding residues [nucleotide binding] 357348009549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348009550 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 357348009551 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 357348009552 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348009553 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 357348009554 FHIPEP family; Region: FHIPEP; pfam00771 357348009555 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 357348009556 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 357348009557 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 357348009558 dimer interface [polypeptide binding]; other site 357348009559 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 357348009560 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 357348009561 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 357348009562 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 357348009563 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 357348009564 active site 357348009565 phosphorylation site [posttranslational modification] 357348009566 intermolecular recognition site; other site 357348009567 dimerization interface [polypeptide binding]; other site 357348009568 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 357348009569 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 357348009570 active site 357348009571 phosphorylation site [posttranslational modification] 357348009572 intermolecular recognition site; other site 357348009573 dimerization interface [polypeptide binding]; other site 357348009574 CheB methylesterase; Region: CheB_methylest; pfam01339 357348009575 CheD chemotactic sensory transduction; Region: CheD; cl00810 357348009576 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 357348009577 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 357348009578 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348009579 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 357348009580 dimer interface [polypeptide binding]; other site 357348009581 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 357348009582 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 357348009583 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348009584 dimer interface [polypeptide binding]; other site 357348009585 putative CheW interface [polypeptide binding]; other site 357348009586 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 357348009587 putative CheA interaction surface; other site 357348009588 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 357348009589 putative binding surface; other site 357348009590 active site 357348009591 CheY binding; Region: CheY-binding; pfam09078 357348009592 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 357348009593 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 357348009594 ATP binding site [chemical binding]; other site 357348009595 Mg2+ binding site [ion binding]; other site 357348009596 G-X-G motif; other site 357348009597 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 357348009598 Response regulator receiver domain; Region: Response_reg; pfam00072 357348009599 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 357348009600 active site 357348009601 phosphorylation site [posttranslational modification] 357348009602 intermolecular recognition site; other site 357348009603 dimerization interface [polypeptide binding]; other site 357348009604 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 357348009605 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 357348009606 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348009607 ligand binding site [chemical binding]; other site 357348009608 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 357348009609 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 357348009610 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 357348009611 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 357348009612 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 357348009613 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 357348009614 putative ADP-binding pocket [chemical binding]; other site 357348009615 H-NS histone family; Region: Histone_HNS; pfam00816 357348009616 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348009617 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 357348009618 amphipathic channel; other site 357348009619 Asn-Pro-Ala signature motifs; other site 357348009620 putative hydrolase; Provisional; Region: PRK10976 357348009621 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 357348009622 active site 357348009623 motif I; other site 357348009624 motif II; other site 357348009625 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 357348009626 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 357348009627 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 357348009628 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 357348009629 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 357348009630 flagellin; Reviewed; Region: PRK08869 357348009631 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 357348009632 Flagellin structural protein; Region: FliC_SP; pfam12613 357348009633 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 357348009634 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 357348009635 Tetratricopeptide repeat; Region: TPR_16; pfam13432 357348009636 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 357348009637 TPR motif; other site 357348009638 binding surface 357348009639 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 357348009640 binding surface 357348009641 TPR motif; other site 357348009642 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 357348009643 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 357348009644 TPR motif; other site 357348009645 binding surface 357348009646 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 357348009647 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 357348009648 inhibitor-cofactor binding pocket; inhibition site 357348009649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348009650 catalytic residue [active] 357348009651 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 357348009652 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 357348009653 dimer interface [polypeptide binding]; other site 357348009654 active site 357348009655 CoA binding pocket [chemical binding]; other site 357348009656 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348009657 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 357348009658 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 357348009659 dimer interface [polypeptide binding]; other site 357348009660 active site 357348009661 CoA binding pocket [chemical binding]; other site 357348009662 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 357348009663 classical (c) SDRs; Region: SDR_c; cd05233 357348009664 NAD(P) binding site [chemical binding]; other site 357348009665 active site 357348009666 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 357348009667 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 357348009668 putative trimer interface [polypeptide binding]; other site 357348009669 putative CoA binding site [chemical binding]; other site 357348009670 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 357348009671 [2Fe-2S] cluster binding site [ion binding]; other site 357348009672 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 357348009673 alpha subunit interface [polypeptide binding]; other site 357348009674 active site 357348009675 substrate binding site [chemical binding]; other site 357348009676 Fe binding site [ion binding]; other site 357348009677 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348009678 LysE type translocator; Region: LysE; cl00565 357348009679 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 357348009680 Phosphoesterase family; Region: Phosphoesterase; cl15450 357348009681 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 357348009682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 357348009683 TolB amino-terminal domain; Region: TolB_N; cl00639 357348009684 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 357348009685 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 357348009686 Cache domain; Region: Cache_1; pfam02743 357348009687 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 357348009688 dimerization interface [polypeptide binding]; other site 357348009689 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 357348009690 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348009691 dimer interface [polypeptide binding]; other site 357348009692 putative CheW interface [polypeptide binding]; other site 357348009693 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 357348009694 FAD binding domain; Region: FAD_binding_4; pfam01565 357348009695 Berberine and berberine like; Region: BBE; pfam08031 357348009696 Chitin binding domain; Region: Chitin_bind_3; cl03871 357348009697 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 357348009698 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 357348009699 Transposase domain (DUF772); Region: DUF772; pfam05598 357348009700 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 357348009701 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 357348009702 active site 357348009703 DNA binding site [nucleotide binding] 357348009704 Int/Topo IB signature motif; other site 357348009705 Cytochrome c; Region: Cytochrom_C; cl11414 357348009706 Cytochrome c; Region: Cytochrom_C; cl11414 357348009707 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 357348009708 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348009709 Family description; Region: UvrD_C_2; cl15862 357348009710 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 357348009711 oxyanion hole [active] 357348009712 active site 357348009713 catalytic triad [active] 357348009714 putative oxidoreductase; Provisional; Region: PRK11579 357348009715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348009716 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 357348009717 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 357348009718 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 357348009719 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 357348009720 lipoyl attachment site [posttranslational modification]; other site 357348009721 glycine dehydrogenase; Provisional; Region: PRK05367 357348009722 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 357348009723 tetramer interface [polypeptide binding]; other site 357348009724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348009725 catalytic residue [active] 357348009726 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 357348009727 tetramer interface [polypeptide binding]; other site 357348009728 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348009729 catalytic residue [active] 357348009730 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 357348009731 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 357348009732 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 357348009733 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 357348009734 thiamine pyrophosphate protein; Validated; Region: PRK08199 357348009735 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 357348009736 PYR/PP interface [polypeptide binding]; other site 357348009737 dimer interface [polypeptide binding]; other site 357348009738 TPP binding site [chemical binding]; other site 357348009739 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 357348009740 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 357348009741 TPP-binding site [chemical binding]; other site 357348009742 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 357348009743 transcriptional regulator EutR; Provisional; Region: PRK10130 357348009744 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 357348009745 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348009746 NAD(P) binding site [chemical binding]; other site 357348009747 catalytic residues [active] 357348009748 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 357348009749 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 357348009750 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 357348009751 ethanolamine permease; Region: 2A0305; TIGR00908 357348009752 Spore germination protein; Region: Spore_permease; cl15802 357348009753 OpgC protein; Region: OpgC_C; cl00792 357348009754 Conserved TM helix; Region: TM_helix; pfam05552 357348009755 Conserved TM helix; Region: TM_helix; pfam05552 357348009756 Conserved TM helix; Region: TM_helix; pfam05552 357348009757 Double zinc ribbon; Region: DZR; pfam12773 357348009758 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 357348009759 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 357348009760 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348009761 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 357348009762 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 357348009763 DNA binding residues [nucleotide binding] 357348009764 dimer interface [polypeptide binding]; other site 357348009765 putative metal binding site [ion binding]; other site 357348009766 Helix-turn-helix domains; Region: HTH; cl00088 357348009767 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 357348009768 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 357348009769 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 357348009770 substrate binding pocket [chemical binding]; other site 357348009771 membrane-bound complex binding site; other site 357348009772 hinge residues; other site 357348009773 putative aminotransferase; Provisional; Region: PRK12414 357348009774 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 357348009775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348009776 homodimer interface [polypeptide binding]; other site 357348009777 catalytic residue [active] 357348009778 Helix-turn-helix domains; Region: HTH; cl00088 357348009779 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 357348009780 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348009781 active site 357348009782 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 357348009783 AMP-binding enzyme; Region: AMP-binding; cl15778 357348009784 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348009785 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 357348009786 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 357348009787 dimerization interface [polypeptide binding]; other site 357348009788 ligand binding site [chemical binding]; other site 357348009789 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 357348009790 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 357348009791 Proline dehydrogenase; Region: Pro_dh; cl03282 357348009792 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 357348009793 Glutamate binding site [chemical binding]; other site 357348009794 NAD binding site [chemical binding]; other site 357348009795 catalytic residues [active] 357348009796 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 357348009797 primosome assembly protein PriA; Validated; Region: PRK05580 357348009798 primosome assembly protein PriA; Validated; Region: PRK05580 357348009799 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 357348009800 ATP binding site [chemical binding]; other site 357348009801 putative Mg++ binding site [ion binding]; other site 357348009802 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348009803 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 357348009804 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 357348009805 substrate binding site [chemical binding]; other site 357348009806 active site 357348009807 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 357348009808 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 357348009809 substrate binding pocket [chemical binding]; other site 357348009810 membrane-bound complex binding site; other site 357348009811 hinge residues; other site 357348009812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348009813 AMP-binding domain protein; Validated; Region: PRK08315 357348009814 AMP-binding enzyme; Region: AMP-binding; cl15778 357348009815 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348009816 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 357348009817 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 357348009818 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 357348009819 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 357348009820 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 357348009821 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 357348009822 alpha subunit interaction interface [polypeptide binding]; other site 357348009823 Walker A motif; other site 357348009824 ATP binding site [chemical binding]; other site 357348009825 Walker B motif; other site 357348009826 inhibitor binding site; inhibition site 357348009827 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 357348009828 ATP synthase; Region: ATP-synt; cl00365 357348009829 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 357348009830 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 357348009831 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 357348009832 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 357348009833 beta subunit interaction interface [polypeptide binding]; other site 357348009834 Walker A motif; other site 357348009835 ATP binding site [chemical binding]; other site 357348009836 Walker B motif; other site 357348009837 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 357348009838 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 357348009839 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 357348009840 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 357348009841 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 357348009842 ATP synthase subunit C; Region: ATP-synt_C; cl00466 357348009843 ATP synthase A chain; Region: ATP-synt_A; cl00413 357348009844 ATP synthase I chain; Region: ATP_synt_I; cl09170 357348009845 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 357348009846 transmembrane helices; other site 357348009847 ParB-like partition proteins; Region: parB_part; TIGR00180 357348009848 ParB-like nuclease domain; Region: ParBc; cl02129 357348009849 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 357348009850 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 357348009851 P-loop; other site 357348009852 Magnesium ion binding site [ion binding]; other site 357348009853 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 357348009854 Magnesium ion binding site [ion binding]; other site 357348009855 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348009856 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 357348009857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348009858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348009859 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 357348009860 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 357348009861 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 357348009862 Walker A/P-loop; other site 357348009863 ATP binding site [chemical binding]; other site 357348009864 Q-loop/lid; other site 357348009865 ABC transporter signature motif; other site 357348009866 Walker B; other site 357348009867 D-loop; other site 357348009868 H-loop/switch region; other site 357348009869 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 357348009870 TM-ABC transporter signature motif; other site 357348009871 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 357348009872 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 357348009873 Walker A/P-loop; other site 357348009874 ATP binding site [chemical binding]; other site 357348009875 Q-loop/lid; other site 357348009876 ABC transporter signature motif; other site 357348009877 Walker B; other site 357348009878 D-loop; other site 357348009879 H-loop/switch region; other site 357348009880 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 357348009881 TM-ABC transporter signature motif; other site 357348009882 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 357348009883 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 357348009884 putative ligand binding site [chemical binding]; other site 357348009885 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 357348009886 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 357348009887 TM-ABC transporter signature motif; other site 357348009888 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 357348009889 TM-ABC transporter signature motif; other site 357348009890 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 357348009891 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 357348009892 putative ligand binding site [chemical binding]; other site 357348009893 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 357348009894 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 357348009895 Walker A/P-loop; other site 357348009896 ATP binding site [chemical binding]; other site 357348009897 Q-loop/lid; other site 357348009898 ABC transporter signature motif; other site 357348009899 Walker B; other site 357348009900 D-loop; other site 357348009901 H-loop/switch region; other site 357348009902 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 357348009903 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 357348009904 Walker A/P-loop; other site 357348009905 ATP binding site [chemical binding]; other site 357348009906 Q-loop/lid; other site 357348009907 ABC transporter signature motif; other site 357348009908 Walker B; other site 357348009909 D-loop; other site 357348009910 H-loop/switch region; other site 357348009911 choline dehydrogenase; Validated; Region: PRK02106 357348009912 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 357348009913 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 357348009914 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348009915 tetrameric interface [polypeptide binding]; other site 357348009916 NAD binding site [chemical binding]; other site 357348009917 catalytic residues [active] 357348009918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348009919 Helix-turn-helix domains; Region: HTH; cl00088 357348009920 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 357348009921 dimerization interface [polypeptide binding]; other site 357348009922 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 357348009923 putative active site [active] 357348009924 putative metal binding residues [ion binding]; other site 357348009925 signature motif; other site 357348009926 putative triphosphate binding site [ion binding]; other site 357348009927 dimer interface [polypeptide binding]; other site 357348009928 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348009929 Helix-turn-helix domains; Region: HTH; cl00088 357348009930 AsnC family; Region: AsnC_trans_reg; pfam01037 357348009931 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 357348009932 cofactor binding site; other site 357348009933 metal binding site [ion binding]; metal-binding site 357348009934 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 357348009935 aromatic arch; other site 357348009936 DCoH dimer interaction site [polypeptide binding]; other site 357348009937 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 357348009938 DCoH tetramer interaction site [polypeptide binding]; other site 357348009939 substrate binding site [chemical binding]; other site 357348009940 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 357348009941 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 357348009942 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 357348009943 active site 357348009944 phosphorylation site [posttranslational modification] 357348009945 intermolecular recognition site; other site 357348009946 dimerization interface [polypeptide binding]; other site 357348009947 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 357348009948 DNA binding site [nucleotide binding] 357348009949 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 357348009950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 357348009951 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 357348009952 dimer interface [polypeptide binding]; other site 357348009953 phosphorylation site [posttranslational modification] 357348009954 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 357348009955 ATP binding site [chemical binding]; other site 357348009956 Mg2+ binding site [ion binding]; other site 357348009957 G-X-G motif; other site 357348009958 SET domain; Region: SET; cl02566 357348009959 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 357348009960 active site 357348009961 FMN binding site [chemical binding]; other site 357348009962 substrate binding site [chemical binding]; other site 357348009963 homotetramer interface [polypeptide binding]; other site 357348009964 catalytic residue [active] 357348009965 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 357348009966 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 357348009967 catalytic triad [active] 357348009968 Transcriptional regulators [Transcription]; Region: MarR; COG1846 357348009969 Helix-turn-helix domains; Region: HTH; cl00088 357348009970 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 357348009971 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 357348009972 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 357348009973 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 357348009974 active site 357348009975 Int/Topo IB signature motif; other site 357348009976 catalytic residues [active] 357348009977 DNA binding site [nucleotide binding] 357348009978 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 357348009979 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 357348009980 non-specific DNA binding site [nucleotide binding]; other site 357348009981 salt bridge; other site 357348009982 sequence-specific DNA binding site [nucleotide binding]; other site 357348009983 Cupin domain; Region: Cupin_2; cl09118 357348009984 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 357348009985 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 357348009986 substrate-cofactor binding pocket; other site 357348009987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348009988 catalytic residue [active] 357348009989 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 357348009990 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 357348009991 NAD(P) binding site [chemical binding]; other site 357348009992 YceI-like domain; Region: YceI; cl01001 357348009993 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348009994 Helix-turn-helix domains; Region: HTH; cl00088 357348009995 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 357348009996 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 357348009997 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 357348009998 putative active site [active] 357348009999 Zn binding site [ion binding]; other site 357348010000 tartrate dehydrogenase; Provisional; Region: PRK08194 357348010001 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 357348010002 transcriptional activator TtdR; Provisional; Region: PRK09801 357348010003 Helix-turn-helix domains; Region: HTH; cl00088 357348010004 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 357348010005 putative effector binding pocket; other site 357348010006 putative dimerization interface [polypeptide binding]; other site 357348010007 Phospholipid methyltransferase; Region: PEMT; cl00763 357348010008 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 357348010009 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 357348010010 putative C-terminal domain interface [polypeptide binding]; other site 357348010011 putative GSH binding site (G-site) [chemical binding]; other site 357348010012 putative dimer interface [polypeptide binding]; other site 357348010013 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 357348010014 putative N-terminal domain interface [polypeptide binding]; other site 357348010015 putative dimer interface [polypeptide binding]; other site 357348010016 putative substrate binding pocket (H-site) [chemical binding]; other site 357348010017 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 357348010018 nucleophile elbow; other site 357348010019 Patatin phospholipase; Region: DUF3734; pfam12536 357348010020 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 357348010021 classical (c) SDRs; Region: SDR_c; cd05233 357348010022 NAD(P) binding site [chemical binding]; other site 357348010023 active site 357348010024 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 357348010025 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 357348010026 active site 357348010027 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 357348010028 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 357348010029 FAD binding pocket [chemical binding]; other site 357348010030 FAD binding motif [chemical binding]; other site 357348010031 phosphate binding motif [ion binding]; other site 357348010032 NAD binding pocket [chemical binding]; other site 357348010033 Helix-turn-helix domains; Region: HTH; cl00088 357348010034 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 357348010035 Protein of unknown function (DUF692); Region: DUF692; cl01263 357348010036 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 357348010037 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 357348010038 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 357348010039 FeS/SAM binding site; other site 357348010040 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 357348010041 S-adenosylmethionine binding site [chemical binding]; other site 357348010042 LysE type translocator; Region: LysE; cl00565 357348010043 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 357348010044 Helix-turn-helix domains; Region: HTH; cl00088 357348010045 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 357348010046 dimerization interface [polypeptide binding]; other site 357348010047 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 357348010048 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 357348010049 ligand binding site [chemical binding]; other site 357348010050 flexible hinge region; other site 357348010051 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 357348010052 putative switch regulator; other site 357348010053 non-specific DNA interactions [nucleotide binding]; other site 357348010054 DNA binding site [nucleotide binding] 357348010055 sequence specific DNA binding site [nucleotide binding]; other site 357348010056 putative cAMP binding site [chemical binding]; other site 357348010057 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 357348010058 Ligand Binding Site [chemical binding]; other site 357348010059 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 357348010060 dimer interface [polypeptide binding]; other site 357348010061 NADP binding site [chemical binding]; other site 357348010062 catalytic residues [active] 357348010063 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 357348010064 Strictosidine synthase; Region: Str_synth; pfam03088 357348010065 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 357348010066 Transcriptional activator HlyU; Region: HlyU; cl02273 357348010067 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 357348010068 serine O-acetyltransferase; Region: cysE; TIGR01172 357348010069 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 357348010070 trimer interface [polypeptide binding]; other site 357348010071 active site 357348010072 substrate binding site [chemical binding]; other site 357348010073 CoA binding site [chemical binding]; other site 357348010074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348010075 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 357348010076 NAD(P) binding site [chemical binding]; other site 357348010077 active site 357348010078 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 357348010079 GTP cyclohydrolase I; Provisional; Region: PLN03044 357348010080 active site 357348010081 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 357348010082 Helix-turn-helix domains; Region: HTH; cl00088 357348010083 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 357348010084 substrate binding pocket [chemical binding]; other site 357348010085 dimerization interface [polypeptide binding]; other site 357348010086 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 357348010087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348010088 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 357348010089 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 357348010090 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 357348010091 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 357348010092 tetramer interface [polypeptide binding]; other site 357348010093 active site 357348010094 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 357348010095 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 357348010096 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 357348010097 benzoate transport; Region: 2A0115; TIGR00895 357348010098 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 357348010099 putative substrate translocation pore; other site 357348010100 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 357348010101 LysE type translocator; Region: LysE; cl00565 357348010102 Uncharacterized conserved protein [Function unknown]; Region: COG3391 357348010103 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 357348010104 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 357348010105 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 357348010106 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 357348010107 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 357348010108 Chromate transporter; Region: Chromate_transp; pfam02417 357348010109 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 357348010110 Chromate transporter; Region: Chromate_transp; pfam02417 357348010111 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 357348010112 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 357348010113 Domain of unknown function (DUF305); Region: DUF305; cl15795 357348010114 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348010115 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348010116 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 357348010117 DNA binding residues [nucleotide binding] 357348010118 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 357348010119 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 357348010120 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 357348010121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348010122 Walker A/P-loop; other site 357348010123 ATP binding site [chemical binding]; other site 357348010124 Q-loop/lid; other site 357348010125 ABC transporter signature motif; other site 357348010126 Walker B; other site 357348010127 D-loop; other site 357348010128 H-loop/switch region; other site 357348010129 excinuclease ABC, A subunit; Region: uvra; TIGR00630 357348010130 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348010131 Walker A/P-loop; other site 357348010132 ATP binding site [chemical binding]; other site 357348010133 Q-loop/lid; other site 357348010134 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 357348010135 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 357348010136 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 357348010137 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 357348010138 H-NS histone family; Region: Histone_HNS; pfam00816 357348010139 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348010140 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 357348010141 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 357348010142 putative substrate translocation pore; other site 357348010143 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 357348010144 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 357348010145 dimer interface [polypeptide binding]; other site 357348010146 phosphorylation site [posttranslational modification] 357348010147 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 357348010148 ATP binding site [chemical binding]; other site 357348010149 Mg2+ binding site [ion binding]; other site 357348010150 G-X-G motif; other site 357348010151 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 357348010152 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 357348010153 active site 357348010154 phosphorylation site [posttranslational modification] 357348010155 intermolecular recognition site; other site 357348010156 dimerization interface [polypeptide binding]; other site 357348010157 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 357348010158 Walker A motif; other site 357348010159 ATP binding site [chemical binding]; other site 357348010160 Walker B motif; other site 357348010161 arginine finger; other site 357348010162 Helix-turn-helix domains; Region: HTH; cl00088 357348010163 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 357348010164 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348010165 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348010166 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 357348010167 Phosphoesterase family; Region: Phosphoesterase; cl15450 357348010168 Domain of unknown function (DUF756); Region: DUF756; pfam05506 357348010169 Domain of unknown function (DUF756); Region: DUF756; pfam05506 357348010170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 357348010171 RNA polymerase sigma factor; Reviewed; Region: PRK12527 357348010172 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 357348010173 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348010174 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 357348010175 dimer interface [polypeptide binding]; other site 357348010176 conserved gate region; other site 357348010177 putative PBP binding loops; other site 357348010178 ABC-ATPase subunit interface; other site 357348010179 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 357348010180 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 357348010181 H-NS histone family; Region: Histone_HNS; pfam00816 357348010182 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348010183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 357348010184 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348010185 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348010186 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 357348010187 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 357348010188 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 357348010189 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 357348010190 PAAR motif; Region: PAAR_motif; cl15808 357348010191 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 357348010192 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 357348010193 catalytic residues [active] 357348010194 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 357348010195 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 357348010196 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 357348010197 Subunit I/III interface [polypeptide binding]; other site 357348010198 D-pathway; other site 357348010199 Subunit I/VIIc interface [polypeptide binding]; other site 357348010200 Subunit I/IV interface [polypeptide binding]; other site 357348010201 Subunit I/II interface [polypeptide binding]; other site 357348010202 Low-spin heme (heme a) binding site [chemical binding]; other site 357348010203 Subunit I/VIIa interface [polypeptide binding]; other site 357348010204 Subunit I/VIa interface [polypeptide binding]; other site 357348010205 Dimer interface; other site 357348010206 Putative water exit pathway; other site 357348010207 Binuclear center (heme a3/CuB) [ion binding]; other site 357348010208 K-pathway; other site 357348010209 Subunit I/Vb interface [polypeptide binding]; other site 357348010210 Putative proton exit pathway; other site 357348010211 Subunit I/VIb interface; other site 357348010212 Subunit I/VIc interface [polypeptide binding]; other site 357348010213 Electron transfer pathway; other site 357348010214 Subunit I/VIIIb interface [polypeptide binding]; other site 357348010215 Subunit I/VIIb interface [polypeptide binding]; other site 357348010216 Haemagglutinin; Region: HIM; pfam05662 357348010217 YadA-like C-terminal region; Region: YadA; pfam03895 357348010218 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 357348010219 YfaZ precursor; Region: YfaZ; pfam07437 357348010220 Fimbrial protein; Region: Fimbrial; cl01416 357348010221 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 357348010222 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 357348010223 putative fimbrial outer membrane usher protein; Provisional; Region: PRK09828 357348010224 PapC N-terminal domain; Region: PapC_N; pfam13954 357348010225 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 357348010226 PapC C-terminal domain; Region: PapC_C; pfam13953 357348010227 Fimbrial protein; Region: Fimbrial; cl01416 357348010228 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 357348010229 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348010230 ligand binding site [chemical binding]; other site 357348010231 Protein of unknown function (DUF770); Region: DUF770; cl01402 357348010232 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 357348010233 Protein of unknown function (DUF877); Region: DUF877; pfam05943 357348010234 Protein of unknown function (DUF796); Region: DUF796; cl01226 357348010235 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 357348010236 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 357348010237 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 357348010238 hypothetical protein; Provisional; Region: PRK08126 357348010239 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 357348010240 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348010241 ligand binding site [chemical binding]; other site 357348010242 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 357348010243 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 357348010244 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 357348010245 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 357348010246 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 357348010247 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348010248 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348010249 PAAR motif; Region: PAAR_motif; cl15808 357348010250 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 357348010251 RHS Repeat; Region: RHS_repeat; cl11982 357348010252 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 357348010253 RHS Repeat; Region: RHS_repeat; cl11982 357348010254 RHS Repeat; Region: RHS_repeat; cl11982 357348010255 RHS protein; Region: RHS; pfam03527 357348010256 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 357348010257 Fimbrial protein; Region: Fimbrial; cl01416 357348010258 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 357348010259 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 357348010260 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 357348010261 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 357348010262 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 357348010263 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 357348010264 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 357348010265 ImpE protein; Region: ImpE; pfam07024 357348010266 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 357348010267 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 357348010268 Walker A motif; other site 357348010269 ATP binding site [chemical binding]; other site 357348010270 Walker B motif; other site 357348010271 arginine finger; other site 357348010272 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 357348010273 Walker A motif; other site 357348010274 ATP binding site [chemical binding]; other site 357348010275 Walker B motif; other site 357348010276 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 357348010277 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 357348010278 sensory histidine kinase AtoS; Provisional; Region: PRK11360 357348010279 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 357348010280 dimer interface [polypeptide binding]; other site 357348010281 phosphorylation site [posttranslational modification] 357348010282 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 357348010283 ATP binding site [chemical binding]; other site 357348010284 Mg2+ binding site [ion binding]; other site 357348010285 G-X-G motif; other site 357348010286 Response regulator receiver domain; Region: Response_reg; pfam00072 357348010287 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 357348010288 active site 357348010289 phosphorylation site [posttranslational modification] 357348010290 intermolecular recognition site; other site 357348010291 dimerization interface [polypeptide binding]; other site 357348010292 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348010293 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 357348010294 active site 357348010295 phosphorylation site [posttranslational modification] 357348010296 intermolecular recognition site; other site 357348010297 dimerization interface [polypeptide binding]; other site 357348010298 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 357348010299 DNA binding residues [nucleotide binding] 357348010300 dimerization interface [polypeptide binding]; other site 357348010301 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 357348010302 PapC N-terminal domain; Region: PapC_N; pfam13954 357348010303 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 357348010304 PapC C-terminal domain; Region: PapC_C; pfam13953 357348010305 putative fimbrial chaperone protein; Provisional; Region: PRK09918 357348010306 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 357348010307 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 357348010308 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348010309 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 357348010310 active site 357348010311 phosphorylation site [posttranslational modification] 357348010312 intermolecular recognition site; other site 357348010313 dimerization interface [polypeptide binding]; other site 357348010314 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 357348010315 DNA binding residues [nucleotide binding] 357348010316 dimerization interface [polypeptide binding]; other site 357348010317 H-NS histone family; Region: Histone_HNS; pfam00816 357348010318 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348010319 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 357348010320 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 357348010321 putative substrate translocation pore; other site 357348010322 Glycerate kinase family; Region: Gly_kinase; cl00841 357348010323 pyruvate kinase; Provisional; Region: PRK06247 357348010324 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 357348010325 domain interfaces; other site 357348010326 active site 357348010327 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 357348010328 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 357348010329 Helix-turn-helix domains; Region: HTH; cl00088 357348010330 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 357348010331 AMP-binding enzyme; Region: AMP-binding; cl15778 357348010332 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348010333 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 357348010334 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 357348010335 extended (e) SDRs; Region: SDR_e; cd08946 357348010336 NAD(P) binding site [chemical binding]; other site 357348010337 active site 357348010338 substrate binding site [chemical binding]; other site 357348010339 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 357348010340 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 357348010341 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 357348010342 S-adenosylmethionine binding site [chemical binding]; other site 357348010343 Helix-turn-helix domains; Region: HTH; cl00088 357348010344 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 357348010345 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 357348010346 substrate binding pocket [chemical binding]; other site 357348010347 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 357348010348 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 357348010349 metal binding site [ion binding]; metal-binding site 357348010350 active site 357348010351 I-site; other site 357348010352 mercuric reductase; Validated; Region: PRK06370 357348010353 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348010354 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 357348010355 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 357348010356 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 357348010357 putative ligand binding site [chemical binding]; other site 357348010358 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 357348010359 TM-ABC transporter signature motif; other site 357348010360 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 357348010361 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 357348010362 Walker A/P-loop; other site 357348010363 ATP binding site [chemical binding]; other site 357348010364 Q-loop/lid; other site 357348010365 ABC transporter signature motif; other site 357348010366 Walker B; other site 357348010367 D-loop; other site 357348010368 H-loop/switch region; other site 357348010369 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 357348010370 Helix-turn-helix domains; Region: HTH; cl00088 357348010371 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 357348010372 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 357348010373 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 357348010374 Domain interface; other site 357348010375 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 357348010376 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 357348010377 Alpha-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. This domain is found in several bacterial and fungal alpha-amylases including the maltopentaose-forming amylases (G5-amylases). Most alpha-amylases have, in addition to the...; Region: CBM20_alpha_amylase; cd05808 357348010378 starch-binding site 2 [chemical binding]; other site 357348010379 starch-binding site 1 [chemical binding]; other site 357348010380 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 357348010381 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 357348010382 ATP binding site [chemical binding]; other site 357348010383 Mg++ binding site [ion binding]; other site 357348010384 motif III; other site 357348010385 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 357348010386 nucleotide binding region [chemical binding]; other site 357348010387 ATP-binding site [chemical binding]; other site 357348010388 DbpA RNA binding domain; Region: DbpA; pfam03880 357348010389 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 357348010390 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 357348010391 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348010392 putative substrate translocation pore; other site 357348010393 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 357348010394 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 357348010395 metal binding site [ion binding]; metal-binding site 357348010396 putative dimer interface [polypeptide binding]; other site 357348010397 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 357348010398 Helix-turn-helix domains; Region: HTH; cl00088 357348010399 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 357348010400 dimerization interface [polypeptide binding]; other site 357348010401 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 357348010402 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 357348010403 putative di-iron ligands [ion binding]; other site 357348010404 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 357348010405 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 357348010406 substrate binding pocket [chemical binding]; other site 357348010407 membrane-bound complex binding site; other site 357348010408 hinge residues; other site 357348010409 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 357348010410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348010411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348010412 Helix-turn-helix domains; Region: HTH; cl00088 357348010413 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 357348010414 dimerization interface [polypeptide binding]; other site 357348010415 short chain dehydrogenase; Provisional; Region: PRK07023 357348010416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348010417 NAD(P) binding site [chemical binding]; other site 357348010418 active site 357348010419 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 357348010420 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 357348010421 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 357348010422 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 357348010423 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 357348010424 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 357348010425 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 357348010426 substrate binding pocket [chemical binding]; other site 357348010427 active site 357348010428 iron coordination sites [ion binding]; other site 357348010429 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 357348010430 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 357348010431 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 357348010432 active site 357348010433 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 357348010434 dimer interface [polypeptide binding]; other site 357348010435 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 357348010436 Ligand Binding Site [chemical binding]; other site 357348010437 Molecular Tunnel; other site 357348010438 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 357348010439 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 357348010440 NADP binding site [chemical binding]; other site 357348010441 dimer interface [polypeptide binding]; other site 357348010442 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 357348010443 putative active site [active] 357348010444 putative metal binding site [ion binding]; other site 357348010445 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348010446 Helix-turn-helix domains; Region: HTH; cl00088 357348010447 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348010448 putative effector binding pocket; other site 357348010449 dimerization interface [polypeptide binding]; other site 357348010450 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 357348010451 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 357348010452 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 357348010453 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 357348010454 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 357348010455 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348010456 ligand binding site [chemical binding]; other site 357348010457 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 357348010458 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 357348010459 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 357348010460 Protein of unknown function (DUF796); Region: DUF796; cl01226 357348010461 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 357348010462 Protein of unknown function (DUF877); Region: DUF877; pfam05943 357348010463 Protein of unknown function (DUF770); Region: DUF770; cl01402 357348010464 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 357348010465 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 357348010466 Walker A motif; other site 357348010467 ATP binding site [chemical binding]; other site 357348010468 Walker B motif; other site 357348010469 arginine finger; other site 357348010470 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 357348010471 Walker A motif; other site 357348010472 ATP binding site [chemical binding]; other site 357348010473 Walker B motif; other site 357348010474 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 357348010475 ImpE protein; Region: ImpE; pfam07024 357348010476 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 357348010477 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 357348010478 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 357348010479 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 357348010480 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 357348010481 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 357348010482 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 357348010483 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348010484 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348010485 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 357348010486 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348010487 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348010488 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 357348010489 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348010490 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348010491 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348010492 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 357348010493 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 357348010494 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348010495 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348010496 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 357348010497 PAAR motif; Region: PAAR_motif; cl15808 357348010498 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 357348010499 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348010500 Helix-turn-helix domains; Region: HTH; cl00088 357348010501 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_3; cd08461 357348010502 putative substrate binding pocket [chemical binding]; other site 357348010503 putative dimerization interface [polypeptide binding]; other site 357348010504 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 357348010505 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 357348010506 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348010507 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 357348010508 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 357348010509 homodimer interface [polypeptide binding]; other site 357348010510 substrate-cofactor binding pocket; other site 357348010511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348010512 catalytic residue [active] 357348010513 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348010514 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 357348010515 dimer interface [polypeptide binding]; other site 357348010516 putative metal binding site [ion binding]; other site 357348010517 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 357348010518 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 357348010519 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 357348010520 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 357348010521 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 357348010522 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 357348010523 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348010524 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 357348010525 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 357348010526 carboxyltransferase (CT) interaction site; other site 357348010527 biotinylation site [posttranslational modification]; other site 357348010528 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 357348010529 putative active site [active] 357348010530 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348010531 Helix-turn-helix domains; Region: HTH; cl00088 357348010532 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 357348010533 putative substrate binding pocket [chemical binding]; other site 357348010534 dimerization interface [polypeptide binding]; other site 357348010535 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 357348010536 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 357348010537 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 357348010538 active site 357348010539 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 357348010540 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 357348010541 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 357348010542 S-adenosylmethionine binding site [chemical binding]; other site 357348010543 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 357348010544 dimerization interface [polypeptide binding]; other site 357348010545 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348010546 dimer interface [polypeptide binding]; other site 357348010547 putative CheW interface [polypeptide binding]; other site 357348010548 Propionate catabolism activator; Region: PrpR_N; pfam06506 357348010549 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 357348010550 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 357348010551 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 357348010552 Walker A motif; other site 357348010553 ATP binding site [chemical binding]; other site 357348010554 Walker B motif; other site 357348010555 arginine finger; other site 357348010556 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 357348010557 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 357348010558 tetramer interface [polypeptide binding]; other site 357348010559 active site 357348010560 Mg2+/Mn2+ binding site [ion binding]; other site 357348010561 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 357348010562 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 357348010563 dimer interface [polypeptide binding]; other site 357348010564 active site 357348010565 citrylCoA binding site [chemical binding]; other site 357348010566 oxalacetate/citrate binding site [chemical binding]; other site 357348010567 coenzyme A binding site [chemical binding]; other site 357348010568 catalytic triad [active] 357348010569 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 357348010570 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 357348010571 substrate binding site [chemical binding]; other site 357348010572 ligand binding site [chemical binding]; other site 357348010573 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 357348010574 substrate binding site [chemical binding]; other site 357348010575 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 357348010576 PrpF protein; Region: PrpF; pfam04303 357348010577 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 357348010578 CoenzymeA binding site [chemical binding]; other site 357348010579 subunit interaction site [polypeptide binding]; other site 357348010580 PHB binding site; other site 357348010581 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 357348010582 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 357348010583 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 357348010584 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 357348010585 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 357348010586 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 357348010587 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 357348010588 FeS/SAM binding site; other site 357348010589 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 357348010590 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 357348010591 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 357348010592 dimer interface [polypeptide binding]; other site 357348010593 ligand binding site [chemical binding]; other site 357348010594 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348010595 dimer interface [polypeptide binding]; other site 357348010596 putative CheW interface [polypeptide binding]; other site 357348010597 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 357348010598 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 357348010599 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 357348010600 Helix-turn-helix domains; Region: HTH; cl00088 357348010601 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 357348010602 dimerization interface [polypeptide binding]; other site 357348010603 substrate binding pocket [chemical binding]; other site 357348010604 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 357348010605 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 357348010606 dimerization interface [polypeptide binding]; other site 357348010607 putative active cleft [active] 357348010608 MgtC family; Region: MgtC; pfam02308 357348010609 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 357348010610 Coenzyme A binding pocket [chemical binding]; other site 357348010611 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 357348010612 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 357348010613 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 357348010614 metal-binding site [ion binding] 357348010615 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 357348010616 metal-binding site [ion binding] 357348010617 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 357348010618 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 357348010619 metal-binding site [ion binding] 357348010620 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 357348010621 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348010622 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 357348010623 Uncharacterized conserved protein [Function unknown]; Region: COG5361 357348010624 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 357348010625 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 357348010626 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 357348010627 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 357348010628 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 357348010629 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 357348010630 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 357348010631 Sulfatase; Region: Sulfatase; cl10460 357348010632 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 357348010633 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348010634 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 357348010635 active site 357348010636 metal binding site [ion binding]; metal-binding site 357348010637 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 357348010638 active site lid residues [active] 357348010639 substrate binding pocket [chemical binding]; other site 357348010640 catalytic residues [active] 357348010641 substrate-Mg2+ binding site; other site 357348010642 aspartate-rich region 1; other site 357348010643 aspartate-rich region 2; other site 357348010644 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 357348010645 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 357348010646 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 357348010647 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 357348010648 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 357348010649 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 357348010650 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 357348010651 tetramer interface [polypeptide binding]; other site 357348010652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348010653 catalytic residue [active] 357348010654 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 357348010655 Helix-turn-helix domains; Region: HTH; cl00088 357348010656 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 357348010657 putative dimerization interface [polypeptide binding]; other site 357348010658 Transglycosylase; Region: Transgly; cl07896 357348010659 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 357348010660 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348010661 Predicted membrane protein [Function unknown]; Region: COG2860 357348010662 UPF0126 domain; Region: UPF0126; pfam03458 357348010663 UPF0126 domain; Region: UPF0126; pfam03458 357348010664 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 357348010665 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 357348010666 Walker A/P-loop; other site 357348010667 ATP binding site [chemical binding]; other site 357348010668 Q-loop/lid; other site 357348010669 ABC transporter signature motif; other site 357348010670 Walker B; other site 357348010671 D-loop; other site 357348010672 H-loop/switch region; other site 357348010673 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 357348010674 putative PBP binding regions; other site 357348010675 ABC-ATPase subunit interface; other site 357348010676 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 357348010677 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 357348010678 intersubunit interface [polypeptide binding]; other site 357348010679 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 357348010680 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 357348010681 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 357348010682 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 357348010683 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 357348010684 N-terminal plug; other site 357348010685 ligand-binding site [chemical binding]; other site 357348010686 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 357348010687 Helix-turn-helix domains; Region: HTH; cl00088 357348010688 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 357348010689 dimerization interface [polypeptide binding]; other site 357348010690 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 357348010691 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 357348010692 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348010693 Walker A/P-loop; other site 357348010694 ATP binding site [chemical binding]; other site 357348010695 Q-loop/lid; other site 357348010696 ABC transporter signature motif; other site 357348010697 Walker B; other site 357348010698 D-loop; other site 357348010699 H-loop/switch region; other site 357348010700 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 357348010701 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 357348010702 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 357348010703 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 357348010704 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348010705 trimer interface [polypeptide binding]; other site 357348010706 eyelet of channel; other site 357348010707 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 357348010708 Helix-turn-helix domains; Region: HTH; cl00088 357348010709 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 357348010710 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 357348010711 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 357348010712 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 357348010713 Walker A/P-loop; other site 357348010714 ATP binding site [chemical binding]; other site 357348010715 Q-loop/lid; other site 357348010716 ABC transporter signature motif; other site 357348010717 Walker B; other site 357348010718 D-loop; other site 357348010719 H-loop/switch region; other site 357348010720 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 357348010721 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 357348010722 TM-ABC transporter signature motif; other site 357348010723 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 357348010724 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 357348010725 putative ligand binding site [chemical binding]; other site 357348010726 short chain dehydrogenase; Provisional; Region: PRK06841 357348010727 classical (c) SDRs; Region: SDR_c; cd05233 357348010728 NAD(P) binding site [chemical binding]; other site 357348010729 active site 357348010730 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 357348010731 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 357348010732 putative NAD(P) binding site [chemical binding]; other site 357348010733 catalytic Zn binding site [ion binding]; other site 357348010734 structural Zn binding site [ion binding]; other site 357348010735 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 357348010736 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 357348010737 DAK2 domain; Region: Dak2; cl03685 357348010738 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 357348010739 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348010740 trimer interface [polypeptide binding]; other site 357348010741 eyelet of channel; other site 357348010742 NMT1-like family; Region: NMT1_2; cl15260 357348010743 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 357348010744 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 357348010745 active site 357348010746 Zn binding site [ion binding]; other site 357348010747 OpgC protein; Region: OpgC_C; cl00792 357348010748 Acyltransferase family; Region: Acyl_transf_3; pfam01757 357348010749 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 357348010750 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 357348010751 substrate binding pocket [chemical binding]; other site 357348010752 membrane-bound complex binding site; other site 357348010753 hinge residues; other site 357348010754 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 357348010755 Helix-turn-helix domains; Region: HTH; cl00088 357348010756 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 357348010757 dimerization interface [polypeptide binding]; other site 357348010758 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 357348010759 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 357348010760 metal binding site [ion binding]; metal-binding site 357348010761 putative dimer interface [polypeptide binding]; other site 357348010762 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348010763 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 357348010764 putative substrate translocation pore; other site 357348010765 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 357348010766 Helix-turn-helix domains; Region: HTH; cl00088 357348010767 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 357348010768 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 357348010769 Helix-turn-helix domains; Region: HTH; cl00088 357348010770 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348010771 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 357348010772 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 357348010773 dimer interface [polypeptide binding]; other site 357348010774 active site 357348010775 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 357348010776 PAS domain; Region: PAS_9; pfam13426 357348010777 putative active site [active] 357348010778 heme pocket [chemical binding]; other site 357348010779 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348010780 dimer interface [polypeptide binding]; other site 357348010781 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 357348010782 putative CheW interface [polypeptide binding]; other site 357348010783 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 357348010784 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 357348010785 S-adenosylmethionine binding site [chemical binding]; other site 357348010786 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 357348010787 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 357348010788 hydrophobic ligand binding site; other site 357348010789 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 357348010790 iron-sulfur cluster [ion binding]; other site 357348010791 [2Fe-2S] cluster binding site [ion binding]; other site 357348010792 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348010793 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 357348010794 tetramerization interface [polypeptide binding]; other site 357348010795 NAD(P) binding site [chemical binding]; other site 357348010796 catalytic residues [active] 357348010797 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 357348010798 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 357348010799 inhibitor-cofactor binding pocket; inhibition site 357348010800 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348010801 catalytic residue [active] 357348010802 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348010803 DNA-binding site [nucleotide binding]; DNA binding site 357348010804 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 357348010805 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 357348010806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348010807 homodimer interface [polypeptide binding]; other site 357348010808 catalytic residue [active] 357348010809 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 357348010810 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348010811 Helix-turn-helix domains; Region: HTH; cl00088 357348010812 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348010813 N-formylglutamate amidohydrolase; Region: FGase; cl01522 357348010814 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 357348010815 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 357348010816 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 357348010817 EamA-like transporter family; Region: EamA; cl01037 357348010818 selenophosphate synthetase; Provisional; Region: PRK00943 357348010819 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 357348010820 dimerization interface [polypeptide binding]; other site 357348010821 putative ATP binding site [chemical binding]; other site 357348010822 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 357348010823 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 357348010824 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348010825 Helix-turn-helix domains; Region: HTH; cl00088 357348010826 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 357348010827 putative effector binding pocket; other site 357348010828 putative dimerization interface [polypeptide binding]; other site 357348010829 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 357348010830 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 357348010831 substrate binding pocket [chemical binding]; other site 357348010832 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 357348010833 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 357348010834 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 357348010835 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 357348010836 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 357348010837 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 357348010838 Transcriptional regulators [Transcription]; Region: FadR; COG2186 357348010839 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348010840 DNA-binding site [nucleotide binding]; DNA binding site 357348010841 FCD domain; Region: FCD; cl11656 357348010842 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 357348010843 Coenzyme A binding pocket [chemical binding]; other site 357348010844 Membrane transport protein; Region: Mem_trans; cl09117 357348010845 acyl-CoA synthetase; Validated; Region: PRK05850 357348010846 AMP-binding enzyme; Region: AMP-binding; cl15778 357348010847 Acyl transferase domain; Region: Acyl_transf_1; cl08282 357348010848 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 357348010849 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348010850 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 357348010851 AMP-binding enzyme; Region: AMP-binding; cl15778 357348010852 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 357348010853 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 357348010854 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 357348010855 catalytic residue [active] 357348010856 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 357348010857 Ketol-acid reductoisomerase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvC; COG0059 357348010858 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348010859 NAD+ binding site [chemical binding]; other site 357348010860 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 357348010861 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348010862 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348010863 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 357348010864 active site 357348010865 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 357348010866 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 357348010867 putative NADP binding site [chemical binding]; other site 357348010868 active site 357348010869 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348010870 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348010871 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348010872 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 357348010873 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348010874 active site 357348010875 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348010876 peptide synthase; Provisional; Region: PRK12467 357348010877 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348010878 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348010879 thioester reductase domain; Region: Thioester-redct; TIGR01746 357348010880 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 357348010881 putative NAD(P) binding site [chemical binding]; other site 357348010882 active site 357348010883 putative substrate binding site [chemical binding]; other site 357348010884 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 357348010885 tetrameric interface [polypeptide binding]; other site 357348010886 NAD binding site [chemical binding]; other site 357348010887 catalytic residues [active] 357348010888 substrate binding site [chemical binding]; other site 357348010889 hypothetical protein; Provisional; Region: PRK07036 357348010890 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 357348010891 inhibitor-cofactor binding pocket; inhibition site 357348010892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348010893 catalytic residue [active] 357348010894 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348010895 SET domain; Region: SET; cl02566 357348010896 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 357348010897 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 357348010898 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 357348010899 AMP-binding enzyme; Region: AMP-binding; cl15778 357348010900 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348010901 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 357348010902 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348010903 active site 357348010904 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 357348010905 Acyl transferase domain; Region: Acyl_transf_1; cl08282 357348010906 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 357348010907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348010908 NAD(P) binding site [chemical binding]; other site 357348010909 active site 357348010910 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348010911 Autoinducer binding domain; Region: Autoind_bind; pfam03472 357348010912 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 357348010913 DNA binding residues [nucleotide binding] 357348010914 dimerization interface [polypeptide binding]; other site 357348010915 NMT1-like family; Region: NMT1_2; cl15260 357348010916 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 357348010917 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 357348010918 active site 357348010919 non-prolyl cis peptide bond; other site 357348010920 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 357348010921 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 357348010922 Walker A/P-loop; other site 357348010923 ATP binding site [chemical binding]; other site 357348010924 Q-loop/lid; other site 357348010925 ABC transporter signature motif; other site 357348010926 Walker B; other site 357348010927 D-loop; other site 357348010928 H-loop/switch region; other site 357348010929 NIL domain; Region: NIL; cl09633 357348010930 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 357348010931 dimer interface [polypeptide binding]; other site 357348010932 conserved gate region; other site 357348010933 ABC-ATPase subunit interface; other site 357348010934 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 357348010935 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 357348010936 Flavin binding site [chemical binding]; other site 357348010937 transcriptional regulator NanR; Provisional; Region: PRK03837 357348010938 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348010939 DNA-binding site [nucleotide binding]; DNA binding site 357348010940 FCD domain; Region: FCD; cl11656 357348010941 Cysteine-rich domain; Region: CCG; pfam02754 357348010942 Cysteine-rich domain; Region: CCG; pfam02754 357348010943 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 357348010944 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 357348010945 4Fe-4S binding domain; Region: Fer4; cl02805 357348010946 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 357348010947 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 357348010948 glycolate transporter; Provisional; Region: PRK09695 357348010949 L-lactate permease; Region: Lactate_perm; cl00701 357348010950 DoxX; Region: DoxX; cl00976 357348010951 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348010952 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 357348010953 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 357348010954 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348010955 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 357348010956 putative substrate translocation pore; other site 357348010957 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 357348010958 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 357348010959 dimer interface [polypeptide binding]; other site 357348010960 NADP binding site [chemical binding]; other site 357348010961 catalytic residues [active] 357348010962 amino acid transporter; Region: 2A0306; TIGR00909 357348010963 Spore germination protein; Region: Spore_permease; cl15802 357348010964 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 357348010965 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 357348010966 inhibitor site; inhibition site 357348010967 active site 357348010968 dimer interface [polypeptide binding]; other site 357348010969 catalytic residue [active] 357348010970 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 357348010971 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 357348010972 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 357348010973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348010974 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 357348010975 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 357348010976 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 357348010977 PAS fold; Region: PAS_4; pfam08448 357348010978 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 357348010979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348010980 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 357348010981 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 357348010982 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 357348010983 dimer interface [polypeptide binding]; other site 357348010984 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 357348010985 active site 357348010986 Fe binding site [ion binding]; other site 357348010987 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 357348010988 active site 357348010989 trimer interface [polypeptide binding]; other site 357348010990 dimer interface [polypeptide binding]; other site 357348010991 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 357348010992 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 357348010993 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 357348010994 shikimate binding site; other site 357348010995 NAD(P) binding site [chemical binding]; other site 357348010996 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 357348010997 D-galactonate transporter; Region: 2A0114; TIGR00893 357348010998 putative substrate translocation pore; other site 357348010999 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 357348011000 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 357348011001 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 357348011002 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348011003 catalytic residue [active] 357348011004 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 357348011005 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 357348011006 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 357348011007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348011008 Walker A/P-loop; other site 357348011009 ATP binding site [chemical binding]; other site 357348011010 Q-loop/lid; other site 357348011011 ABC transporter signature motif; other site 357348011012 Walker B; other site 357348011013 D-loop; other site 357348011014 H-loop/switch region; other site 357348011015 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 357348011016 dimer interface [polypeptide binding]; other site 357348011017 conserved gate region; other site 357348011018 putative PBP binding loops; other site 357348011019 ABC-ATPase subunit interface; other site 357348011020 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 357348011021 Sulfatase; Region: Sulfatase; cl10460 357348011022 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348011023 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 357348011024 NAD(P) binding site [chemical binding]; other site 357348011025 catalytic residues [active] 357348011026 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 357348011027 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 357348011028 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 357348011029 DNA binding residues [nucleotide binding] 357348011030 dimer interface [polypeptide binding]; other site 357348011031 copper binding site [ion binding]; other site 357348011032 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 357348011033 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 357348011034 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 357348011035 active site 357348011036 catalytic tetrad [active] 357348011037 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 357348011038 classical (c) SDRs; Region: SDR_c; cd05233 357348011039 NAD(P) binding site [chemical binding]; other site 357348011040 active site 357348011041 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 357348011042 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 357348011043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348011044 homodimer interface [polypeptide binding]; other site 357348011045 catalytic residue [active] 357348011046 excinuclease ABC subunit B; Provisional; Region: PRK05298 357348011047 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 357348011048 ATP binding site [chemical binding]; other site 357348011049 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 357348011050 nucleotide binding region [chemical binding]; other site 357348011051 ATP-binding site [chemical binding]; other site 357348011052 Ultra-violet resistance protein B; Region: UvrB; pfam12344 357348011053 UvrB/uvrC motif; Region: UVR; pfam02151 357348011054 Fe2+ transport protein; Region: Iron_transport; cl01377 357348011055 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348011056 Iron permease FTR1 family; Region: FTR1; cl00475 357348011057 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 357348011058 4Fe-4S binding domain; Region: Fer4_5; pfam12801 357348011059 Domain of unknown function (DUF336); Region: DUF336; cl01249 357348011060 Hemin uptake protein hemP; Region: hemP; cl10043 357348011061 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 357348011062 putative hydrophobic ligand binding site [chemical binding]; other site 357348011063 Pirin-related protein [General function prediction only]; Region: COG1741 357348011064 Cupin domain; Region: Cupin_2; cl09118 357348011065 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 357348011066 LysR family transcriptional regulator; Provisional; Region: PRK14997 357348011067 Helix-turn-helix domains; Region: HTH; cl00088 357348011068 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 357348011069 putative effector binding pocket; other site 357348011070 putative dimerization interface [polypeptide binding]; other site 357348011071 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 357348011072 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 357348011073 Gram-negative bacterial tonB protein; Region: TonB; cl10048 357348011074 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 357348011075 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 357348011076 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 357348011077 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 357348011078 heme binding site [chemical binding]; other site 357348011079 ferroxidase pore; other site 357348011080 ferroxidase diiron center [ion binding]; other site 357348011081 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 357348011082 Fumarase C-terminus; Region: Fumerase_C; cl00795 357348011083 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 357348011084 EamA-like transporter family; Region: EamA; cl01037 357348011085 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 357348011086 EamA-like transporter family; Region: EamA; cl01037 357348011087 acetyl-CoA synthetase; Provisional; Region: PRK00174 357348011088 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 357348011089 AMP-binding enzyme; Region: AMP-binding; cl15778 357348011090 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348011091 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 357348011092 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 357348011093 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 357348011094 Na binding site [ion binding]; other site 357348011095 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 357348011096 Integrase core domain; Region: rve; cl01316 357348011097 Integrase core domain; Region: rve_3; cl15866 357348011098 Protein of unknown function (DUF497); Region: DUF497; cl01108 357348011099 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 357348011100 Integrase core domain; Region: rve; cl01316 357348011101 Integrase core domain; Region: rve_3; cl15866 357348011102 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 357348011103 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 357348011104 DNA-binding interface [nucleotide binding]; DNA binding site 357348011105 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 357348011106 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 357348011107 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 357348011108 active site 357348011109 metal binding site [ion binding]; metal-binding site 357348011110 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 357348011111 Integrase core domain; Region: rve; cl01316 357348011112 Integrase core domain; Region: rve_3; cl15866 357348011113 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 357348011114 Bacterial Ig-like domain; Region: Big_5; cl01012 357348011115 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 357348011116 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 357348011117 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 357348011118 PYR/PP interface [polypeptide binding]; other site 357348011119 dimer interface [polypeptide binding]; other site 357348011120 TPP binding site [chemical binding]; other site 357348011121 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 357348011122 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 357348011123 TPP-binding site [chemical binding]; other site 357348011124 dimer interface [polypeptide binding]; other site 357348011125 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 357348011126 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 357348011127 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 357348011128 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 357348011129 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 357348011130 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 357348011131 SLBB domain; Region: SLBB; pfam10531 357348011132 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 357348011133 Chain length determinant protein; Region: Wzz; cl15801 357348011134 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 357348011135 Chain length determinant protein; Region: Wzz; cl15801 357348011136 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 357348011137 substrate binding site; other site 357348011138 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 357348011139 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 357348011140 NAD binding site [chemical binding]; other site 357348011141 homotetramer interface [polypeptide binding]; other site 357348011142 homodimer interface [polypeptide binding]; other site 357348011143 substrate binding site [chemical binding]; other site 357348011144 active site 357348011145 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 357348011146 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 357348011147 inhibitor-cofactor binding pocket; inhibition site 357348011148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348011149 catalytic residue [active] 357348011150 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 357348011151 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348011152 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 357348011153 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 357348011154 inhibitor-cofactor binding pocket; inhibition site 357348011155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348011156 catalytic residue [active] 357348011157 MatE; Region: MatE; cl10513 357348011158 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 357348011159 active site 357348011160 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 357348011161 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 357348011162 putative active site [active] 357348011163 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 357348011164 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 357348011165 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 357348011166 putative active site [active] 357348011167 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 357348011168 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 357348011169 trimer interface [polypeptide binding]; other site 357348011170 active site 357348011171 substrate binding site [chemical binding]; other site 357348011172 CoA binding site [chemical binding]; other site 357348011173 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 357348011174 active site 357348011175 LysR family transcriptional regulator; Provisional; Region: PRK14997 357348011176 Helix-turn-helix domains; Region: HTH; cl00088 357348011177 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348011178 putative effector binding pocket; other site 357348011179 dimerization interface [polypeptide binding]; other site 357348011180 Pirin-related protein [General function prediction only]; Region: COG1741 357348011181 Cupin domain; Region: Cupin_2; cl09118 357348011182 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 357348011183 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 357348011184 ligand binding site [chemical binding]; other site 357348011185 flexible hinge region; other site 357348011186 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 357348011187 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011188 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348011189 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011190 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348011191 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011193 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 357348011194 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 357348011195 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 357348011196 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348011197 Helix-turn-helix domains; Region: HTH; cl00088 357348011198 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348011199 putative effector binding pocket; other site 357348011200 dimerization interface [polypeptide binding]; other site 357348011201 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 357348011202 Isochorismatase family; Region: Isochorismatase; pfam00857 357348011203 catalytic triad [active] 357348011204 dimer interface [polypeptide binding]; other site 357348011205 conserved cis-peptide bond; other site 357348011206 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 357348011207 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 357348011208 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 357348011209 active site 357348011210 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 357348011211 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 357348011212 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348011213 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 357348011214 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 357348011215 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 357348011216 NAD binding site [chemical binding]; other site 357348011217 active site 357348011218 Flavin Reductases; Region: FlaRed; cl00801 357348011219 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 357348011220 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348011221 DNA-binding site [nucleotide binding]; DNA binding site 357348011222 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 357348011223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348011224 homodimer interface [polypeptide binding]; other site 357348011225 catalytic residue [active] 357348011226 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 357348011227 conserved cys residue [active] 357348011228 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 357348011229 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348011230 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 357348011231 hypothetical protein; Provisional; Region: PRK08609 357348011232 active site 357348011233 primer binding site [nucleotide binding]; other site 357348011234 NTP binding site [chemical binding]; other site 357348011235 metal binding triad [ion binding]; metal-binding site 357348011236 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 357348011237 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348011238 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348011239 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 357348011240 Bacterial Ig-like domain; Region: Big_5; cl01012 357348011241 Copper resistance protein D; Region: CopD; cl00563 357348011242 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 357348011243 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 357348011244 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 357348011245 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348011246 dimer interface [polypeptide binding]; other site 357348011247 putative CheW interface [polypeptide binding]; other site 357348011248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348011249 FAD dependent oxidoreductase; Region: DAO; pfam01266 357348011250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348011251 FAD dependent oxidoreductase; Region: DAO; pfam01266 357348011252 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 357348011253 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 357348011254 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 357348011255 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 357348011256 dimer interface [polypeptide binding]; other site 357348011257 conserved gate region; other site 357348011258 putative PBP binding loops; other site 357348011259 ABC-ATPase subunit interface; other site 357348011260 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 357348011261 dimer interface [polypeptide binding]; other site 357348011262 conserved gate region; other site 357348011263 putative PBP binding loops; other site 357348011264 ABC-ATPase subunit interface; other site 357348011265 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 357348011266 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348011267 Walker A/P-loop; other site 357348011268 ATP binding site [chemical binding]; other site 357348011269 Q-loop/lid; other site 357348011270 ABC transporter signature motif; other site 357348011271 Walker B; other site 357348011272 D-loop; other site 357348011273 H-loop/switch region; other site 357348011274 TOBE domain; Region: TOBE_2; cl01440 357348011275 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 357348011276 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 357348011277 putative aminotransferase; Validated; Region: PRK07480 357348011278 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 357348011279 inhibitor-cofactor binding pocket; inhibition site 357348011280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348011281 catalytic residue [active] 357348011282 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 357348011283 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 357348011284 Peptidase C26; Region: Peptidase_C26; pfam07722 357348011285 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 357348011286 catalytic triad [active] 357348011287 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 357348011288 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 357348011289 non-specific DNA binding site [nucleotide binding]; other site 357348011290 salt bridge; other site 357348011291 sequence-specific DNA binding site [nucleotide binding]; other site 357348011292 Cupin domain; Region: Cupin_2; cl09118 357348011293 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 357348011294 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 357348011295 NAD(P) binding site [chemical binding]; other site 357348011296 catalytic residues [active] 357348011297 Arginase family; Region: Arginase; cl00306 357348011298 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 357348011299 oligomerisation interface [polypeptide binding]; other site 357348011300 mobile loop; other site 357348011301 roof hairpin; other site 357348011302 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 357348011303 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 357348011304 ring oligomerisation interface [polypeptide binding]; other site 357348011305 ATP/Mg binding site [chemical binding]; other site 357348011306 stacking interactions; other site 357348011307 hinge regions; other site 357348011308 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 357348011309 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 357348011310 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 357348011311 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 357348011312 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 357348011313 active site 357348011314 dimer interface [polypeptide binding]; other site 357348011315 effector binding site; other site 357348011316 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 357348011317 AMP-binding enzyme; Region: AMP-binding; cl15778 357348011318 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348011319 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 357348011320 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 357348011321 active site 357348011322 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 357348011323 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 357348011324 dimer interface [polypeptide binding]; other site 357348011325 active site 357348011326 CoA binding pocket [chemical binding]; other site 357348011327 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348011328 acyl-CoA synthetase; Validated; Region: PRK05850 357348011329 AMP-binding enzyme; Region: AMP-binding; cl15778 357348011330 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348011331 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 357348011332 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 357348011333 active site 357348011334 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348011335 MAPEG family; Region: MAPEG; cl09190 357348011336 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 357348011337 putative hydrophobic ligand binding site [chemical binding]; other site 357348011338 Integrase core domain; Region: rve_3; cl15866 357348011339 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 357348011340 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 357348011341 catalytic residue [active] 357348011342 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 357348011343 catalytic residues [active] 357348011344 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348011345 peroxiredoxin; Region: AhpC; TIGR03137 357348011346 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 357348011347 dimer interface [polypeptide binding]; other site 357348011348 decamer (pentamer of dimers) interface [polypeptide binding]; other site 357348011349 catalytic triad [active] 357348011350 peroxidatic and resolving cysteines [active] 357348011351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 357348011352 Chitin binding domain; Region: Chitin_bind_3; cl03871 357348011353 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 357348011354 putative FMN binding site [chemical binding]; other site 357348011355 Uncharacterized conserved protein [Function unknown]; Region: COG2308 357348011356 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 357348011357 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 357348011358 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 357348011359 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 357348011360 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 357348011361 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 357348011362 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 357348011363 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 357348011364 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 357348011365 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 357348011366 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 357348011367 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 357348011368 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 357348011369 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 357348011370 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 357348011371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348011372 DNA-binding site [nucleotide binding]; DNA binding site 357348011373 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 357348011374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348011375 homodimer interface [polypeptide binding]; other site 357348011376 catalytic residue [active] 357348011377 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 357348011378 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 357348011379 putative substrate translocation pore; other site 357348011380 Predicted membrane protein [Function unknown]; Region: COG1289 357348011381 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 357348011382 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 357348011383 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 357348011384 conserved cys residue [active] 357348011385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011386 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 357348011387 conserved cys residue [active] 357348011388 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 357348011389 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 357348011390 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348011391 catalytic residue [active] 357348011392 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 357348011393 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 357348011394 PYR/PP interface [polypeptide binding]; other site 357348011395 dimer interface [polypeptide binding]; other site 357348011396 TPP binding site [chemical binding]; other site 357348011397 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 357348011398 TPP-binding site [chemical binding]; other site 357348011399 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 357348011400 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 357348011401 tetramer interface [polypeptide binding]; other site 357348011402 active site 357348011403 Mg2+/Mn2+ binding site [ion binding]; other site 357348011404 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 357348011405 active site 357348011406 metal-binding site 357348011407 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 357348011408 active site 357348011409 metal-binding site 357348011410 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 357348011411 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 357348011412 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 357348011413 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 357348011414 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 357348011415 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 357348011416 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 357348011417 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 357348011418 Protein of unknown function (DUF770); Region: DUF770; cl01402 357348011419 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 357348011420 Protein of unknown function (DUF877); Region: DUF877; pfam05943 357348011421 Protein of unknown function (DUF796); Region: DUF796; cl01226 357348011422 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 357348011423 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 357348011424 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 357348011425 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 357348011426 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 357348011427 Clp amino terminal domain; Region: Clp_N; pfam02861 357348011428 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 357348011429 Walker A motif; other site 357348011430 ATP binding site [chemical binding]; other site 357348011431 Walker B motif; other site 357348011432 arginine finger; other site 357348011433 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 357348011434 Walker A motif; other site 357348011435 ATP binding site [chemical binding]; other site 357348011436 Walker B motif; other site 357348011437 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 357348011438 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 357348011439 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348011440 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348011441 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 357348011442 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348011443 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348011444 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 357348011445 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 357348011446 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 357348011447 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 357348011448 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 357348011449 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348011450 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 357348011451 PAAR motif; Region: PAAR_motif; cl15808 357348011452 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 357348011453 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 357348011454 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 357348011455 hypothetical protein; Provisional; Region: PRK14693 357348011456 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 357348011457 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348011458 ligand binding site [chemical binding]; other site 357348011459 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 357348011460 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 357348011461 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 357348011462 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 357348011463 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348011464 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 357348011465 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 357348011466 active site 357348011467 TDP-binding site; other site 357348011468 acceptor substrate-binding pocket; other site 357348011469 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348011470 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 357348011471 putative substrate translocation pore; other site 357348011472 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 357348011473 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 357348011474 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 357348011475 Ligand binding site; other site 357348011476 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 357348011477 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 357348011478 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 357348011479 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 357348011480 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 357348011481 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 357348011482 substrate binding [chemical binding]; other site 357348011483 active site 357348011484 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 357348011485 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 357348011486 active site 357348011487 Transcriptional regulators [Transcription]; Region: PurR; COG1609 357348011488 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 357348011489 DNA binding site [nucleotide binding] 357348011490 domain linker motif; other site 357348011491 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 357348011492 ligand binding site [chemical binding]; other site 357348011493 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 357348011494 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 357348011495 NAD binding site [chemical binding]; other site 357348011496 catalytic Zn binding site [ion binding]; other site 357348011497 structural Zn binding site [ion binding]; other site 357348011498 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 357348011499 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 357348011500 conserved cys residue [active] 357348011501 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011502 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 357348011503 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 357348011504 dimer interface [polypeptide binding]; other site 357348011505 active site 357348011506 glycine-pyridoxal phosphate binding site [chemical binding]; other site 357348011507 folate binding site [chemical binding]; other site 357348011508 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 357348011509 active site 357348011510 dimer interface [polypeptide binding]; other site 357348011511 Heme NO binding; Region: HNOB; cl15268 357348011512 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 357348011513 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 357348011514 putative active site [active] 357348011515 putative FMN binding site [chemical binding]; other site 357348011516 putative substrate binding site [chemical binding]; other site 357348011517 putative catalytic residue [active] 357348011518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348011519 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 357348011520 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 357348011521 Cysteine-rich domain; Region: CCG; pfam02754 357348011522 Cysteine-rich domain; Region: CCG; pfam02754 357348011523 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 357348011524 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 357348011525 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 357348011526 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 357348011527 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 357348011528 [2Fe-2S] cluster binding site [ion binding]; other site 357348011529 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 357348011530 putative alpha subunit interface [polypeptide binding]; other site 357348011531 putative active site [active] 357348011532 putative substrate binding site [chemical binding]; other site 357348011533 Fe binding site [ion binding]; other site 357348011534 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 357348011535 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 357348011536 FAD binding pocket [chemical binding]; other site 357348011537 FAD binding motif [chemical binding]; other site 357348011538 phosphate binding motif [ion binding]; other site 357348011539 beta-alpha-beta structure motif; other site 357348011540 NAD binding pocket [chemical binding]; other site 357348011541 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 357348011542 catalytic loop [active] 357348011543 iron binding site [ion binding]; other site 357348011544 NMT1-like family; Region: NMT1_2; cl15260 357348011545 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 357348011546 Amino acid permease; Region: AA_permease_2; pfam13520 357348011547 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 357348011548 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 357348011549 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 357348011550 putative active site [active] 357348011551 putative substrate binding site [chemical binding]; other site 357348011552 putative cosubstrate binding site; other site 357348011553 catalytic site [active] 357348011554 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 357348011555 Helix-turn-helix domains; Region: HTH; cl00088 357348011556 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 357348011557 substrate binding pocket [chemical binding]; other site 357348011558 dimerization interface [polypeptide binding]; other site 357348011559 choline-sulfatase; Region: chol_sulfatase; TIGR03417 357348011560 Sulfatase; Region: Sulfatase; cl10460 357348011561 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 357348011562 NMT1-like family; Region: NMT1_2; cl15260 357348011563 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 357348011564 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348011565 trimer interface [polypeptide binding]; other site 357348011566 eyelet of channel; other site 357348011567 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 357348011568 active site 357348011569 metal binding site [ion binding]; metal-binding site 357348011570 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 357348011571 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 357348011572 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 357348011573 Zn binding site [ion binding]; other site 357348011574 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 357348011575 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 357348011576 conserved cys residue [active] 357348011577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011578 NMT1-like family; Region: NMT1_2; cl15260 357348011579 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 357348011580 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 357348011581 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 357348011582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348011583 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 357348011584 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 357348011585 active site 357348011586 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 357348011587 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 357348011588 short chain dehydrogenase; Provisional; Region: PRK06197 357348011589 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 357348011590 putative NAD(P) binding site [chemical binding]; other site 357348011591 active site 357348011592 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 357348011593 glycerol-3-phosphate dehydrogenase; Region: PLN02464 357348011594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348011595 FAD dependent oxidoreductase; Region: DAO; pfam01266 357348011596 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 357348011597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348011598 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 357348011599 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 357348011600 dimerization interface [polypeptide binding]; other site 357348011601 ligand binding site [chemical binding]; other site 357348011602 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 357348011603 TM-ABC transporter signature motif; other site 357348011604 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 357348011605 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 357348011606 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 357348011607 TM-ABC transporter signature motif; other site 357348011608 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 357348011609 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 357348011610 Walker A/P-loop; other site 357348011611 ATP binding site [chemical binding]; other site 357348011612 Q-loop/lid; other site 357348011613 ABC transporter signature motif; other site 357348011614 Walker B; other site 357348011615 D-loop; other site 357348011616 H-loop/switch region; other site 357348011617 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 357348011618 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 357348011619 Walker A/P-loop; other site 357348011620 ATP binding site [chemical binding]; other site 357348011621 Q-loop/lid; other site 357348011622 ABC transporter signature motif; other site 357348011623 Walker B; other site 357348011624 D-loop; other site 357348011625 H-loop/switch region; other site 357348011626 Peptidase family M23; Region: Peptidase_M23; pfam01551 357348011627 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 357348011628 Bacterial SH3 domain; Region: SH3_3; cl02551 357348011629 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 357348011630 chorismate binding enzyme; Region: Chorismate_bind; cl10555 357348011631 Chorismate mutase type II; Region: CM_2; cl00693 357348011632 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 357348011633 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 357348011634 nucleophilic elbow; other site 357348011635 catalytic triad; other site 357348011636 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 357348011637 AMP-binding enzyme; Region: AMP-binding; cl15778 357348011638 AMP-binding enzyme; Region: AMP-binding; cl15778 357348011639 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348011640 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011641 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348011642 Condensation domain; Region: Condensation; pfam00668 357348011643 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 357348011644 Nonribosomal peptide synthase; Region: NRPS; pfam08415 357348011645 AMP-binding enzyme; Region: AMP-binding; cl15778 357348011646 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348011647 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 357348011648 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348011649 Condensation domain; Region: Condensation; pfam00668 357348011650 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 357348011651 Nonribosomal peptide synthase; Region: NRPS; pfam08415 357348011652 AMP-binding enzyme; Region: AMP-binding; cl15778 357348011653 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348011654 peptide synthase; Provisional; Region: PRK12316 357348011655 Thioesterase domain; Region: Thioesterase; pfam00975 357348011656 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 357348011657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348011658 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 357348011659 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348011660 Walker A/P-loop; other site 357348011661 ATP binding site [chemical binding]; other site 357348011662 Q-loop/lid; other site 357348011663 ABC transporter signature motif; other site 357348011664 Walker B; other site 357348011665 D-loop; other site 357348011666 H-loop/switch region; other site 357348011667 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 357348011668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348011669 Walker A/P-loop; other site 357348011670 ATP binding site [chemical binding]; other site 357348011671 Q-loop/lid; other site 357348011672 ABC transporter signature motif; other site 357348011673 Walker B; other site 357348011674 D-loop; other site 357348011675 H-loop/switch region; other site 357348011676 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 357348011677 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 357348011678 N-terminal plug; other site 357348011679 ligand-binding site [chemical binding]; other site 357348011680 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 357348011681 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 357348011682 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 357348011683 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 357348011684 catalytic loop [active] 357348011685 iron binding site [ion binding]; other site 357348011686 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 357348011687 GAF domain; Region: GAF; cl15785 357348011688 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 357348011689 Walker A motif; other site 357348011690 ATP binding site [chemical binding]; other site 357348011691 Walker B motif; other site 357348011692 arginine finger; other site 357348011693 Helix-turn-helix domains; Region: HTH; cl00088 357348011694 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 357348011695 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 357348011696 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 357348011697 NlpC/P60 family; Region: NLPC_P60; cl11438 357348011698 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 357348011699 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 357348011700 Helix-turn-helix domains; Region: HTH; cl00088 357348011701 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 357348011702 dimerization interface [polypeptide binding]; other site 357348011703 substrate binding pocket [chemical binding]; other site 357348011704 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348011705 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 357348011706 NAD(P) binding site [chemical binding]; other site 357348011707 catalytic residues [active] 357348011708 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 357348011709 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348011710 active site 357348011711 iron coordination sites [ion binding]; other site 357348011712 substrate binding pocket [chemical binding]; other site 357348011713 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 357348011714 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 357348011715 PYR/PP interface [polypeptide binding]; other site 357348011716 dimer interface [polypeptide binding]; other site 357348011717 TPP binding site [chemical binding]; other site 357348011718 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 357348011719 TPP-binding site; other site 357348011720 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 357348011721 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 357348011722 tetramer interface [polypeptide binding]; other site 357348011723 active site 357348011724 Mg2+/Mn2+ binding site [ion binding]; other site 357348011725 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 357348011726 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 357348011727 short chain dehydrogenase; Validated; Region: PRK05855 357348011728 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 357348011729 classical (c) SDRs; Region: SDR_c; cd05233 357348011730 NAD(P) binding site [chemical binding]; other site 357348011731 active site 357348011732 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 357348011733 active site 357348011734 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 357348011735 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 357348011736 active site 357348011737 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 357348011738 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 357348011739 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348011740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011741 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348011742 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348011743 active site 357348011744 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 357348011745 AMP-binding enzyme; Region: AMP-binding; cl15778 357348011746 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 357348011747 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348011748 tetrameric interface [polypeptide binding]; other site 357348011749 NAD binding site [chemical binding]; other site 357348011750 catalytic residues [active] 357348011751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348011752 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 357348011753 enoyl-CoA hydratase; Provisional; Region: PRK09076 357348011754 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348011755 substrate binding site [chemical binding]; other site 357348011756 oxyanion hole (OAH) forming residues; other site 357348011757 trimer interface [polypeptide binding]; other site 357348011758 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 357348011759 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348011760 substrate binding site [chemical binding]; other site 357348011761 oxyanion hole (OAH) forming residues; other site 357348011762 trimer interface [polypeptide binding]; other site 357348011763 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 357348011764 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 357348011765 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 357348011766 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 357348011767 Walker A/P-loop; other site 357348011768 ATP binding site [chemical binding]; other site 357348011769 Q-loop/lid; other site 357348011770 ABC transporter signature motif; other site 357348011771 Walker B; other site 357348011772 D-loop; other site 357348011773 H-loop/switch region; other site 357348011774 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 357348011775 FtsX-like permease family; Region: FtsX; cl15850 357348011776 macrolide transporter subunit MacA; Provisional; Region: PRK11578 357348011777 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 357348011778 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 357348011779 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 357348011780 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 357348011781 active site 357348011782 dimer interface [polypeptide binding]; other site 357348011783 non-prolyl cis peptide bond; other site 357348011784 insertion regions; other site 357348011785 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 357348011786 B1 nucleotide binding pocket [chemical binding]; other site 357348011787 B2 nucleotide binding pocket [chemical binding]; other site 357348011788 CAS motifs; other site 357348011789 active site 357348011790 Glutaminase; Region: Glutaminase; cl00907 357348011791 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 357348011792 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 357348011793 active site 357348011794 phosphorylation site [posttranslational modification] 357348011795 intermolecular recognition site; other site 357348011796 dimerization interface [polypeptide binding]; other site 357348011797 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 357348011798 DNA binding site [nucleotide binding] 357348011799 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 357348011800 dimer interface [polypeptide binding]; other site 357348011801 phosphorylation site [posttranslational modification] 357348011802 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 357348011803 ATP binding site [chemical binding]; other site 357348011804 Mg2+ binding site [ion binding]; other site 357348011805 G-X-G motif; other site 357348011806 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 357348011807 active site 357348011808 nucleophile elbow; other site 357348011809 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348011810 Surface antigen; Region: Bac_surface_Ag; cl03097 357348011811 rod shape-determining protein MreB; Provisional; Region: PRK13930 357348011812 Cell division protein FtsA; Region: FtsA; cl11496 357348011813 Cytochrome c; Region: Cytochrom_C; cl11414 357348011814 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 357348011815 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 357348011816 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 357348011817 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 357348011818 substrate binding pocket [chemical binding]; other site 357348011819 aspartate-rich region 1; other site 357348011820 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 357348011821 putative dimer interface [polypeptide binding]; other site 357348011822 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348011823 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 357348011824 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 357348011825 C-terminal domain interface [polypeptide binding]; other site 357348011826 GSH binding site (G-site) [chemical binding]; other site 357348011827 dimer interface [polypeptide binding]; other site 357348011828 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 357348011829 N-terminal domain interface [polypeptide binding]; other site 357348011830 dimer interface [polypeptide binding]; other site 357348011831 substrate binding pocket (H-site) [chemical binding]; other site 357348011832 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 357348011833 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 357348011834 dimer interface [polypeptide binding]; other site 357348011835 phosphorylation site [posttranslational modification] 357348011836 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 357348011837 ATP binding site [chemical binding]; other site 357348011838 Mg2+ binding site [ion binding]; other site 357348011839 G-X-G motif; other site 357348011840 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 357348011841 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 357348011842 active site 357348011843 phosphorylation site [posttranslational modification] 357348011844 intermolecular recognition site; other site 357348011845 dimerization interface [polypeptide binding]; other site 357348011846 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 357348011847 DNA binding site [nucleotide binding] 357348011848 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 357348011849 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 357348011850 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 357348011851 putative active site [active] 357348011852 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 357348011853 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 357348011854 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 357348011855 active site residue [active] 357348011856 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 357348011857 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 357348011858 conserved cys residue [active] 357348011859 hypothetical protein; Provisional; Region: PRK07907 357348011860 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 357348011861 metal binding site [ion binding]; metal-binding site 357348011862 putative dimer interface [polypeptide binding]; other site 357348011863 TfoX N-terminal domain; Region: TfoX_N; cl01167 357348011864 Phospholipid methyltransferase; Region: PEMT; cl00763 357348011865 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 357348011866 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 357348011867 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 357348011868 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 357348011869 Integrase core domain; Region: rve_3; cl15866 357348011870 VirK protein; Region: VirK; pfam06903 357348011871 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 357348011872 Integrase core domain; Region: rve_3; cl15866 357348011873 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 357348011874 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 357348011875 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 357348011876 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 357348011877 Major Facilitator Superfamily; Region: MFS_1; pfam07690 357348011878 putative substrate translocation pore; other site 357348011879 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 357348011880 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 357348011881 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 357348011882 Subunit I/III interface [polypeptide binding]; other site 357348011883 Autoinducer binding domain; Region: Autoind_bind; pfam03472 357348011884 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 357348011885 DNA binding residues [nucleotide binding] 357348011886 dimerization interface [polypeptide binding]; other site 357348011887 Autoinducer binding domain; Region: Autoind_bind; pfam03472 357348011888 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 357348011889 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 357348011890 active site 357348011891 dimer interface [polypeptide binding]; other site 357348011892 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 357348011893 Ligand Binding Site [chemical binding]; other site 357348011894 Molecular Tunnel; other site 357348011895 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 357348011896 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 357348011897 DNA binding site [nucleotide binding] 357348011898 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 357348011899 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 357348011900 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 357348011901 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 357348011902 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 357348011903 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 357348011904 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 357348011905 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 357348011906 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 357348011907 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 357348011908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011909 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 357348011910 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 357348011911 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 357348011912 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 357348011913 Flavin binding site [chemical binding]; other site 357348011914 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 357348011915 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348011916 active site 357348011917 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 357348011918 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 357348011919 active site 357348011920 non-prolyl cis peptide bond; other site 357348011921 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 357348011922 dimerization interface [polypeptide binding]; other site 357348011923 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 357348011924 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 357348011925 dimer interface [polypeptide binding]; other site 357348011926 phosphorylation site [posttranslational modification] 357348011927 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 357348011928 ATP binding site [chemical binding]; other site 357348011929 Mg2+ binding site [ion binding]; other site 357348011930 G-X-G motif; other site 357348011931 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 357348011932 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 357348011933 active site 357348011934 phosphorylation site [posttranslational modification] 357348011935 intermolecular recognition site; other site 357348011936 dimerization interface [polypeptide binding]; other site 357348011937 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 357348011938 DNA binding site [nucleotide binding] 357348011939 MltA-interacting protein MipA; Region: MipA; cl01504 357348011940 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 357348011941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348011942 NAD(P) binding site [chemical binding]; other site 357348011943 active site 357348011944 Helix-turn-helix domains; Region: HTH; cl00088 357348011945 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 357348011946 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 357348011947 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 357348011948 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 357348011949 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348011950 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 357348011951 NAD binding site [chemical binding]; other site 357348011952 catalytic residues [active] 357348011953 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 357348011954 putative active site [active] 357348011955 putative metal binding site [ion binding]; other site 357348011956 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cl01268 357348011957 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 357348011958 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 357348011959 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 357348011960 Helix-turn-helix domain; Region: HTH_18; pfam12833 357348011961 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348011962 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 357348011963 NAD(P) binding site [chemical binding]; other site 357348011964 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348011965 trimer interface [polypeptide binding]; other site 357348011966 eyelet of channel; other site 357348011967 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 357348011968 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348011969 Walker A/P-loop; other site 357348011970 ATP binding site [chemical binding]; other site 357348011971 Q-loop/lid; other site 357348011972 ABC transporter signature motif; other site 357348011973 Walker B; other site 357348011974 D-loop; other site 357348011975 H-loop/switch region; other site 357348011976 TOBE domain; Region: TOBE_2; cl01440 357348011977 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 357348011978 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 357348011979 dimer interface [polypeptide binding]; other site 357348011980 conserved gate region; other site 357348011981 ABC-ATPase subunit interface; other site 357348011982 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 357348011983 dimer interface [polypeptide binding]; other site 357348011984 conserved gate region; other site 357348011985 putative PBP binding loops; other site 357348011986 ABC-ATPase subunit interface; other site 357348011987 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 357348011988 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 357348011989 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 357348011990 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 357348011991 active site 357348011992 phosphorylation site [posttranslational modification] 357348011993 intermolecular recognition site; other site 357348011994 dimerization interface [polypeptide binding]; other site 357348011995 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 357348011996 DNA binding site [nucleotide binding] 357348011997 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 357348011998 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 357348011999 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 357348012000 dimer interface [polypeptide binding]; other site 357348012001 phosphorylation site [posttranslational modification] 357348012002 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 357348012003 ATP binding site [chemical binding]; other site 357348012004 Mg2+ binding site [ion binding]; other site 357348012005 G-X-G motif; other site 357348012006 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 357348012007 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 357348012008 MOSC domain; Region: MOSC; pfam03473 357348012009 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348012010 trimer interface [polypeptide binding]; other site 357348012011 eyelet of channel; other site 357348012012 enoyl-CoA hydratase; Validated; Region: PRK08139 357348012013 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348012014 substrate binding site [chemical binding]; other site 357348012015 oxyanion hole (OAH) forming residues; other site 357348012016 trimer interface [polypeptide binding]; other site 357348012017 alanine racemase; Reviewed; Region: PRK13340 357348012018 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 357348012019 active site 357348012020 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 357348012021 substrate binding site [chemical binding]; other site 357348012022 catalytic residues [active] 357348012023 dimer interface [polypeptide binding]; other site 357348012024 Domain of unknown function (DUF427); Region: DUF427; cl00998 357348012025 TIGR03440 family protein; Region: unchr_TIGR03440 357348012026 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 357348012027 probable methyltransferase; Region: TIGR03438 357348012028 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 357348012029 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 357348012030 Esterase/lipase [General function prediction only]; Region: COG1647 357348012031 MASE1; Region: MASE1; pfam05231 357348012032 PAS fold; Region: PAS_3; pfam08447 357348012033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348012034 Helix-turn-helix domains; Region: HTH; cl00088 357348012035 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 357348012036 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 357348012037 potential catalytic triad [active] 357348012038 conserved cys residue [active] 357348012039 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 357348012040 active site 357348012041 FMN binding site [chemical binding]; other site 357348012042 substrate binding site [chemical binding]; other site 357348012043 homotetramer interface [polypeptide binding]; other site 357348012044 catalytic residue [active] 357348012045 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 357348012046 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 357348012047 NAD binding site [chemical binding]; other site 357348012048 homotetramer interface [polypeptide binding]; other site 357348012049 homodimer interface [polypeptide binding]; other site 357348012050 substrate binding site [chemical binding]; other site 357348012051 active site 357348012052 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 357348012053 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 357348012054 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 357348012055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012056 NAD(P) binding site [chemical binding]; other site 357348012057 active site 357348012058 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 357348012059 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348012060 DNA-binding site [nucleotide binding]; DNA binding site 357348012061 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 357348012062 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348012063 homodimer interface [polypeptide binding]; other site 357348012064 catalytic residue [active] 357348012065 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 357348012066 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 357348012067 ATP binding site [chemical binding]; other site 357348012068 Mg2+ binding site [ion binding]; other site 357348012069 G-X-G motif; other site 357348012070 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 357348012071 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 357348012072 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 357348012073 ligand binding site [chemical binding]; other site 357348012074 flexible hinge region; other site 357348012075 Helix-turn-helix domains; Region: HTH; cl00088 357348012076 acyl-CoA synthetase; Validated; Region: PRK08162 357348012077 AMP-binding enzyme; Region: AMP-binding; cl15778 357348012078 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348012079 Cache domain; Region: Cache_1; pfam02743 357348012080 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 357348012081 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348012082 dimer interface [polypeptide binding]; other site 357348012083 putative CheW interface [polypeptide binding]; other site 357348012084 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 357348012085 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 357348012086 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 357348012087 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 357348012088 DXD motif; other site 357348012089 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 357348012090 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 357348012091 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 357348012092 Cupin domain; Region: Cupin_2; cl09118 357348012093 Helix-turn-helix domains; Region: HTH; cl00088 357348012094 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 357348012095 dimerization interface [polypeptide binding]; other site 357348012096 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 357348012097 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 357348012098 inhibitor-cofactor binding pocket; inhibition site 357348012099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348012100 catalytic residue [active] 357348012101 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 357348012102 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348012103 tetrameric interface [polypeptide binding]; other site 357348012104 NAD binding site [chemical binding]; other site 357348012105 catalytic residues [active] 357348012106 Acetyl esterase (deacetylase) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3458 357348012107 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348012108 Secretory lipase; Region: LIP; pfam03583 357348012109 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348012110 trimer interface [polypeptide binding]; other site 357348012111 eyelet of channel; other site 357348012112 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 357348012113 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 357348012114 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 357348012115 DNA binding residues [nucleotide binding] 357348012116 dimerization interface [polypeptide binding]; other site 357348012117 amino acid transporter; Region: 2A0306; TIGR00909 357348012118 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 357348012119 homodimer interface [polypeptide binding]; other site 357348012120 homotetramer interface [polypeptide binding]; other site 357348012121 active site pocket [active] 357348012122 cleavage site 357348012123 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 357348012124 Fusaric acid resistance protein family; Region: FUSC; pfam04632 357348012125 transcriptional regulator; Provisional; Region: PRK10632 357348012126 Helix-turn-helix domains; Region: HTH; cl00088 357348012127 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348012128 putative effector binding pocket; other site 357348012129 dimerization interface [polypeptide binding]; other site 357348012130 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 357348012131 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348012132 trimer interface [polypeptide binding]; other site 357348012133 eyelet of channel; other site 357348012134 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 357348012135 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348012136 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 357348012137 Na binding site [ion binding]; other site 357348012138 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 357348012139 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 357348012140 Helix-turn-helix domains; Region: HTH; cl00088 357348012141 cytosine deaminase; Provisional; Region: PRK09230 357348012142 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 357348012143 active site 357348012144 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 357348012145 putative substrate translocation pore; other site 357348012146 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 357348012147 short chain dehydrogenase; Provisional; Region: PRK12829 357348012148 classical (c) SDRs; Region: SDR_c; cd05233 357348012149 NAD(P) binding site [chemical binding]; other site 357348012150 active site 357348012151 Helix-turn-helix domains; Region: HTH; cl00088 357348012152 FCD domain; Region: FCD; cl11656 357348012153 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 357348012154 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 357348012155 putative ion selectivity filter; other site 357348012156 putative pore gating glutamate residue; other site 357348012157 H-type lectin domain; Region: H_lectin; pfam09458 357348012158 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 357348012159 Phosphoesterase family; Region: Phosphoesterase; cl15450 357348012160 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 357348012161 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348012162 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 357348012163 active site 357348012164 phosphorylation site [posttranslational modification] 357348012165 intermolecular recognition site; other site 357348012166 dimerization interface [polypeptide binding]; other site 357348012167 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 357348012168 DNA binding residues [nucleotide binding] 357348012169 dimerization interface [polypeptide binding]; other site 357348012170 Helix-turn-helix domains; Region: HTH; cl00088 357348012171 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 357348012172 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 357348012173 dimerization interface [polypeptide binding]; other site 357348012174 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 357348012175 TM-ABC transporter signature motif; other site 357348012176 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 357348012177 Cupin domain; Region: Cupin_2; cl09118 357348012178 Protein of unknown function (DUF419); Region: DUF419; cl15265 357348012179 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 357348012180 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348012181 substrate binding site [chemical binding]; other site 357348012182 oxyanion hole (OAH) forming residues; other site 357348012183 trimer interface [polypeptide binding]; other site 357348012184 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348012185 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 357348012186 NAD(P) binding site [chemical binding]; other site 357348012187 catalytic residues [active] 357348012188 feruloyl-CoA synthase; Reviewed; Region: PRK08180 357348012189 AMP-binding enzyme; Region: AMP-binding; cl15778 357348012190 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 357348012191 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 357348012192 putative substrate translocation pore; other site 357348012193 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348012194 trimer interface [polypeptide binding]; other site 357348012195 eyelet of channel; other site 357348012196 Tannase and feruloyl esterase; Region: Tannase; pfam07519 357348012197 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348012198 Helix-turn-helix domains; Region: HTH; cl00088 357348012199 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348012200 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 357348012201 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 357348012202 ligand binding site [chemical binding]; other site 357348012203 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 357348012204 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 357348012205 Walker A/P-loop; other site 357348012206 ATP binding site [chemical binding]; other site 357348012207 Q-loop/lid; other site 357348012208 ABC transporter signature motif; other site 357348012209 Walker B; other site 357348012210 D-loop; other site 357348012211 H-loop/switch region; other site 357348012212 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 357348012213 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 357348012214 TM-ABC transporter signature motif; other site 357348012215 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 357348012216 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 357348012217 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 357348012218 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 357348012219 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 357348012220 active site 357348012221 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 357348012222 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 357348012223 NAD binding site [chemical binding]; other site 357348012224 homotetramer interface [polypeptide binding]; other site 357348012225 homodimer interface [polypeptide binding]; other site 357348012226 active site 357348012227 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 357348012228 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 357348012229 short chain dehydrogenase; Provisional; Region: PRK08628 357348012230 classical (c) SDRs; Region: SDR_c; cd05233 357348012231 NAD(P) binding site [chemical binding]; other site 357348012232 active site 357348012233 Domain of unknown function (DUF718); Region: DUF718; cl01281 357348012234 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 357348012235 YadA-like C-terminal region; Region: YadA; pfam03895 357348012236 H-NS histone family; Region: Histone_HNS; pfam00816 357348012237 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348012238 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348012239 Helix-turn-helix domains; Region: HTH; cl00088 357348012240 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348012241 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 357348012242 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348012243 Helix-turn-helix domains; Region: HTH; cl00088 357348012244 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 357348012245 CoenzymeA binding site [chemical binding]; other site 357348012246 subunit interaction site [polypeptide binding]; other site 357348012247 PHB binding site; other site 357348012248 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 357348012249 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 357348012250 dimerization interface [polypeptide binding]; other site 357348012251 ligand binding site [chemical binding]; other site 357348012252 Haemolysin-III related; Region: HlyIII; cl03831 357348012253 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 357348012254 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 357348012255 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 357348012256 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 357348012257 metal binding site [ion binding]; metal-binding site 357348012258 active site 357348012259 I-site; other site 357348012260 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 357348012261 Helix-turn-helix domains; Region: HTH; cl00088 357348012262 AsnC family; Region: AsnC_trans_reg; pfam01037 357348012263 aromatic amino acid transporter; Provisional; Region: PRK10238 357348012264 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 357348012265 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 357348012266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348012267 homodimer interface [polypeptide binding]; other site 357348012268 catalytic residue [active] 357348012269 Protein of unknown function, DUF488; Region: DUF488; cl01246 357348012270 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 357348012271 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348012272 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 357348012273 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 357348012274 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 357348012275 sensory histidine kinase AtoS; Provisional; Region: PRK11360 357348012276 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 357348012277 ATP binding site [chemical binding]; other site 357348012278 G-X-G motif; other site 357348012279 Response regulator receiver domain; Region: Response_reg; pfam00072 357348012280 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 357348012281 active site 357348012282 phosphorylation site [posttranslational modification] 357348012283 intermolecular recognition site; other site 357348012284 dimerization interface [polypeptide binding]; other site 357348012285 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 357348012286 Transglycosylase; Region: Transgly; cl07896 357348012287 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348012288 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 357348012289 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 357348012290 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 357348012291 MG2 domain; Region: A2M_N; pfam01835 357348012292 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 357348012293 Alpha-2-macroglobulin family; Region: A2M; pfam00207 357348012294 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 357348012295 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 357348012296 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 357348012297 putative active site pocket [active] 357348012298 dimerization interface [polypeptide binding]; other site 357348012299 putative catalytic residue [active] 357348012300 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348012301 active site 357348012302 HIGH motif; other site 357348012303 nucleotide binding site [chemical binding]; other site 357348012304 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348012305 active site 357348012306 KMSKS motif; other site 357348012307 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 357348012308 tRNA binding surface [nucleotide binding]; other site 357348012309 anticodon binding site; other site 357348012310 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348012311 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 357348012312 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 357348012313 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348012314 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348012315 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 357348012316 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 357348012317 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348012318 catalytic residue [active] 357348012319 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 357348012320 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 357348012321 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 357348012322 putative monooxygenase; Reviewed; Region: PRK07045 357348012323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012324 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 357348012325 Cupin domain; Region: Cupin_2; cl09118 357348012326 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 357348012327 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 357348012328 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348012329 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 357348012330 active site 357348012331 phosphorylation site [posttranslational modification] 357348012332 intermolecular recognition site; other site 357348012333 dimerization interface [polypeptide binding]; other site 357348012334 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 357348012335 DNA binding residues [nucleotide binding] 357348012336 dimerization interface [polypeptide binding]; other site 357348012337 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 357348012338 Ligand Binding Site [chemical binding]; other site 357348012339 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 357348012340 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 357348012341 Ligand Binding Site [chemical binding]; other site 357348012342 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 357348012343 Ligand Binding Site [chemical binding]; other site 357348012344 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 357348012345 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 357348012346 Ligand Binding Site [chemical binding]; other site 357348012347 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 357348012348 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 357348012349 catalytic Zn binding site [ion binding]; other site 357348012350 structural Zn binding site [ion binding]; other site 357348012351 NAD(P) binding site [chemical binding]; other site 357348012352 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 357348012353 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 357348012354 active site residue [active] 357348012355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012356 NAD(P) binding site [chemical binding]; other site 357348012357 active site 357348012358 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 357348012359 Spore germination protein; Region: Spore_permease; cl15802 357348012360 H-NS histone family; Region: Histone_HNS; pfam00816 357348012361 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348012362 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 357348012363 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 357348012364 Flavin binding site [chemical binding]; other site 357348012365 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 357348012366 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 357348012367 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 357348012368 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 357348012369 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 357348012370 active site 357348012371 non-prolyl cis peptide bond; other site 357348012372 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 357348012373 active site 357348012374 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 357348012375 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 357348012376 substrate binding site [chemical binding]; other site 357348012377 dimer interface [polypeptide binding]; other site 357348012378 ATP binding site [chemical binding]; other site 357348012379 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 357348012380 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348012381 DEAD_2; Region: DEAD_2; pfam06733 357348012382 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348012383 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 357348012384 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 357348012385 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 357348012386 flagellar capping protein; Reviewed; Region: fliD; PRK08032 357348012387 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 357348012388 transcriptional regulator; Provisional; Region: PRK10632 357348012389 Helix-turn-helix domains; Region: HTH; cl00088 357348012390 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348012391 putative effector binding pocket; other site 357348012392 dimerization interface [polypeptide binding]; other site 357348012393 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 357348012394 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 357348012395 catalytic residues [active] 357348012396 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 357348012397 dimerization interface [polypeptide binding]; other site 357348012398 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 357348012399 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 357348012400 active site 357348012401 catalytic tetrad [active] 357348012402 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 357348012403 classical (c) SDRs; Region: SDR_c; cd05233 357348012404 NAD(P) binding site [chemical binding]; other site 357348012405 active site 357348012406 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 357348012407 DNA binding residues [nucleotide binding] 357348012408 dimerization interface [polypeptide binding]; other site 357348012409 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 357348012410 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348012411 NAD(P) binding site [chemical binding]; other site 357348012412 catalytic residues [active] 357348012413 hypothetical protein; Provisional; Region: PRK07481 357348012414 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 357348012415 inhibitor-cofactor binding pocket; inhibition site 357348012416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348012417 catalytic residue [active] 357348012418 Spore germination protein; Region: Spore_permease; cl15802 357348012419 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 357348012420 transcriptional regulator EutR; Provisional; Region: PRK10130 357348012421 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348012422 eyelet of channel; other site 357348012423 trimer interface [polypeptide binding]; other site 357348012424 LysE type translocator; Region: LysE; cl00565 357348012425 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348012426 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 357348012427 FMN binding site [chemical binding]; other site 357348012428 active site 357348012429 substrate binding site [chemical binding]; other site 357348012430 catalytic residue [active] 357348012431 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 357348012432 putative DNA binding site [nucleotide binding]; other site 357348012433 dimerization interface [polypeptide binding]; other site 357348012434 putative Zn2+ binding site [ion binding]; other site 357348012435 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348012436 trimer interface [polypeptide binding]; other site 357348012437 eyelet of channel; other site 357348012438 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 357348012439 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 357348012440 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 357348012441 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 357348012442 FOG: CBS domain [General function prediction only]; Region: COG0517 357348012443 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 357348012444 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 357348012445 dimerization interface [polypeptide binding]; other site 357348012446 active site 357348012447 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 357348012448 NADH/NADPH cofactor binding site [chemical binding]; other site 357348012449 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348012450 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 357348012451 Autoinducer binding domain; Region: Autoind_bind; pfam03472 357348012452 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 357348012453 DNA binding residues [nucleotide binding] 357348012454 dimerization interface [polypeptide binding]; other site 357348012455 magnesium transport protein MgtC; Provisional; Region: PRK15385 357348012456 MgtC family; Region: MgtC; pfam02308 357348012457 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 357348012458 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 357348012459 putative active site [active] 357348012460 putative metal binding site [ion binding]; other site 357348012461 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 357348012462 putative FMN binding site [chemical binding]; other site 357348012463 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 357348012464 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348012465 Helix-turn-helix domains; Region: HTH; cl00088 357348012466 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348012467 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348012468 trimer interface [polypeptide binding]; other site 357348012469 eyelet of channel; other site 357348012470 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 357348012471 [2Fe-2S] cluster binding site [ion binding]; other site 357348012472 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 357348012473 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 357348012474 iron-sulfur cluster [ion binding]; other site 357348012475 [2Fe-2S] cluster binding site [ion binding]; other site 357348012476 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 357348012477 hydrophobic ligand binding site; other site 357348012478 short chain dehydrogenase; Provisional; Region: PRK12939 357348012479 classical (c) SDRs; Region: SDR_c; cd05233 357348012480 NAD(P) binding site [chemical binding]; other site 357348012481 active site 357348012482 Cupin domain; Region: Cupin_2; cl09118 357348012483 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348012484 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348012485 Helix-turn-helix domains; Region: HTH; cl00088 357348012486 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348012487 short chain dehydrogenase; Provisional; Region: PRK07062 357348012488 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 357348012489 putative NAD(P) binding site [chemical binding]; other site 357348012490 putative active site [active] 357348012491 hypothetical protein; Provisional; Region: PRK07064 357348012492 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 357348012493 PYR/PP interface [polypeptide binding]; other site 357348012494 dimer interface [polypeptide binding]; other site 357348012495 TPP binding site [chemical binding]; other site 357348012496 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 357348012497 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 357348012498 TPP-binding site [chemical binding]; other site 357348012499 L-aspartate dehydrogenase; Provisional; Region: PRK13303 357348012500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012501 Domain of unknown function DUF108; Region: DUF108; pfam01958 357348012502 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348012503 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 357348012504 NAD(P) binding site [chemical binding]; other site 357348012505 catalytic residues [active] 357348012506 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 357348012507 active site 357348012508 metal binding site [ion binding]; metal-binding site 357348012509 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 357348012510 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 357348012511 putative active site [active] 357348012512 putative metal binding site [ion binding]; other site 357348012513 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 357348012514 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348012515 benzoate transport; Region: 2A0115; TIGR00895 357348012516 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 357348012517 putative substrate translocation pore; other site 357348012518 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 357348012519 Haemagglutinin; Region: HIM; pfam05662 357348012520 Haemagglutinin; Region: HIM; pfam05662 357348012521 Haemagglutinin; Region: HIM; pfam05662 357348012522 YadA-like C-terminal region; Region: YadA; pfam03895 357348012523 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 357348012524 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348012525 ligand binding site [chemical binding]; other site 357348012526 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 357348012527 Ligand Binding Site [chemical binding]; other site 357348012528 amidase; Provisional; Region: PRK07486 357348012529 Amidase; Region: Amidase; cl11426 357348012530 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348012531 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 357348012532 putative DNA binding site [nucleotide binding]; other site 357348012533 putative Zn2+ binding site [ion binding]; other site 357348012534 AsnC family; Region: AsnC_trans_reg; pfam01037 357348012535 methionine gamma-lyase; Validated; Region: PRK07049 357348012536 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 357348012537 homodimer interface [polypeptide binding]; other site 357348012538 substrate-cofactor binding pocket; other site 357348012539 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348012540 catalytic residue [active] 357348012541 N-acetyltransferase; Region: Acetyltransf_2; cl00949 357348012542 Putative glycolipid-binding; Region: Glycolipid_bind; cl01425 357348012543 Helix-turn-helix domains; Region: HTH; cl00088 357348012544 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 357348012545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012546 Integrase core domain; Region: rve; cl01316 357348012547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348012548 Helix-turn-helix domains; Region: HTH; cl00088 357348012549 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 357348012550 dimerization interface [polypeptide binding]; other site 357348012551 hypothetical protein; Provisional; Region: PRK07079 357348012552 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 357348012553 metal binding site [ion binding]; metal-binding site 357348012554 putative dimer interface [polypeptide binding]; other site 357348012555 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 357348012556 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348012557 putative substrate translocation pore; other site 357348012558 short chain dehydrogenase; Validated; Region: PRK05855 357348012559 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 357348012560 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 357348012561 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 357348012562 short chain dehydrogenase; Provisional; Region: PRK07832 357348012563 classical (c) SDRs; Region: SDR_c; cd05233 357348012564 NAD(P) binding site [chemical binding]; other site 357348012565 active site 357348012566 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 357348012567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012568 YhhN-like protein; Region: YhhN; cl01505 357348012569 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 357348012570 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 357348012571 substrate binding pocket [chemical binding]; other site 357348012572 membrane-bound complex binding site; other site 357348012573 hinge residues; other site 357348012574 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 357348012575 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 357348012576 DNA binding residues [nucleotide binding] 357348012577 putative dimer interface [polypeptide binding]; other site 357348012578 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 357348012579 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 357348012580 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348012581 Coenzyme A binding pocket [chemical binding]; other site 357348012582 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348012583 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 357348012584 putative substrate translocation pore; other site 357348012585 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 357348012586 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 357348012587 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 357348012588 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348012589 dimer interface [polypeptide binding]; other site 357348012590 putative CheW interface [polypeptide binding]; other site 357348012591 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 357348012592 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 357348012593 Family description; Region: UvrD_C_2; cl15862 357348012594 BetR domain; Region: BetR; pfam08667 357348012595 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 357348012596 active site 357348012597 phosphorylation site [posttranslational modification] 357348012598 intermolecular recognition site; other site 357348012599 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 357348012600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012602 Ion channel; Region: Ion_trans_2; cl11596 357348012603 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 357348012604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012605 short chain dehydrogenase; Validated; Region: PRK05855 357348012606 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 357348012607 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 357348012608 ornithine cyclodeaminase; Validated; Region: PRK07340 357348012609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012610 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 357348012611 Putative esterase; Region: Esterase; pfam00756 357348012612 OpgC protein; Region: OpgC_C; cl00792 357348012613 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348012614 trimer interface [polypeptide binding]; other site 357348012615 eyelet of channel; other site 357348012616 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348012617 Helix-turn-helix domains; Region: HTH; cl00088 357348012618 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 357348012619 putative dimerization interface [polypeptide binding]; other site 357348012620 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 357348012621 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 357348012622 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348012623 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 357348012624 Helix-turn-helix domains; Region: HTH; cl00088 357348012625 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 357348012626 substrate binding pocket [chemical binding]; other site 357348012627 dimerization interface [polypeptide binding]; other site 357348012628 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 357348012629 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 357348012630 Walker A/P-loop; other site 357348012631 ATP binding site [chemical binding]; other site 357348012632 Q-loop/lid; other site 357348012633 ABC transporter signature motif; other site 357348012634 Walker B; other site 357348012635 D-loop; other site 357348012636 H-loop/switch region; other site 357348012637 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 357348012638 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 357348012639 Walker A/P-loop; other site 357348012640 ATP binding site [chemical binding]; other site 357348012641 Q-loop/lid; other site 357348012642 ABC transporter signature motif; other site 357348012643 Walker B; other site 357348012644 D-loop; other site 357348012645 H-loop/switch region; other site 357348012646 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 357348012647 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 357348012648 dimer interface [polypeptide binding]; other site 357348012649 conserved gate region; other site 357348012650 putative PBP binding loops; other site 357348012651 ABC-ATPase subunit interface; other site 357348012652 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 357348012653 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 357348012654 dimer interface [polypeptide binding]; other site 357348012655 conserved gate region; other site 357348012656 putative PBP binding loops; other site 357348012657 ABC-ATPase subunit interface; other site 357348012658 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 357348012659 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 357348012660 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 357348012661 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 357348012662 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 357348012663 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 357348012664 putative active site [active] 357348012665 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 357348012666 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348012667 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348012668 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 357348012669 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 357348012670 PAAR motif; Region: PAAR_motif; cl15808 357348012671 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 357348012672 RHS Repeat; Region: RHS_repeat; cl11982 357348012673 RHS Repeat; Region: RHS_repeat; cl11982 357348012674 RHS Repeat; Region: RHS_repeat; cl11982 357348012675 RHS Repeat; Region: RHS_repeat; cl11982 357348012676 RHS Repeat; Region: RHS_repeat; cl11982 357348012677 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 357348012678 RHS Repeat; Region: RHS_repeat; cl11982 357348012679 RHS Repeat; Region: RHS_repeat; cl11982 357348012680 RHS Repeat; Region: RHS_repeat; cl11982 357348012681 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 357348012682 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 357348012683 catalytic triad [active] 357348012684 putative active site [active] 357348012685 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 357348012686 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 357348012687 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 357348012688 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 357348012689 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 357348012690 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 357348012691 Cupin domain; Region: Cupin_2; cl09118 357348012692 Cupin domain; Region: Cupin_2; cl09118 357348012693 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 357348012694 yiaA/B two helix domain; Region: YiaAB; cl01759 357348012695 yiaA/B two helix domain; Region: YiaAB; cl01759 357348012696 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 357348012697 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 357348012698 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 357348012699 putative molybdopterin cofactor binding site [chemical binding]; other site 357348012700 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 357348012701 putative molybdopterin cofactor binding site; other site 357348012702 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 357348012703 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348012704 DNA-binding site [nucleotide binding]; DNA binding site 357348012705 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 357348012706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348012707 homodimer interface [polypeptide binding]; other site 357348012708 catalytic residue [active] 357348012709 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 357348012710 magnesium-transporting ATPase; Provisional; Region: PRK15122 357348012711 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 357348012712 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 357348012713 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 357348012714 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348012715 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348012716 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 357348012717 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 357348012718 active site 357348012719 catalytic triad [active] 357348012720 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 357348012721 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 357348012722 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 357348012723 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 357348012724 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 357348012725 Cytochrome c; Region: Cytochrom_C; cl11414 357348012726 DoxX; Region: DoxX; cl00976 357348012727 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348012728 trimer interface [polypeptide binding]; other site 357348012729 eyelet of channel; other site 357348012730 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 357348012731 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 357348012732 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 357348012733 dimer interface [polypeptide binding]; other site 357348012734 conserved gate region; other site 357348012735 putative PBP binding loops; other site 357348012736 ABC-ATPase subunit interface; other site 357348012737 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 357348012738 dimer interface [polypeptide binding]; other site 357348012739 conserved gate region; other site 357348012740 putative PBP binding loops; other site 357348012741 ABC-ATPase subunit interface; other site 357348012742 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 357348012743 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 357348012744 Walker A/P-loop; other site 357348012745 ATP binding site [chemical binding]; other site 357348012746 Q-loop/lid; other site 357348012747 ABC transporter signature motif; other site 357348012748 Walker B; other site 357348012749 D-loop; other site 357348012750 H-loop/switch region; other site 357348012751 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 357348012752 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 357348012753 putative active site [active] 357348012754 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 357348012755 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 357348012756 putative substrate translocation pore; other site 357348012757 Histidine kinase; Region: His_kinase; pfam06580 357348012758 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 357348012759 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 357348012760 Response regulator receiver domain; Region: Response_reg; pfam00072 357348012761 active site 357348012762 phosphorylation site [posttranslational modification] 357348012763 intermolecular recognition site; other site 357348012764 dimerization interface [polypeptide binding]; other site 357348012765 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 357348012766 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 357348012767 tetramer interface [polypeptide binding]; other site 357348012768 heme binding pocket [chemical binding]; other site 357348012769 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 357348012770 S-adenosylmethionine binding site [chemical binding]; other site 357348012771 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 357348012772 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348012773 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 357348012774 iron-sulfur cluster [ion binding]; other site 357348012775 [2Fe-2S] cluster binding site [ion binding]; other site 357348012776 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 357348012777 hydrophobic ligand binding site; other site 357348012778 TPR repeat; Region: TPR_11; pfam13414 357348012779 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 357348012780 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 357348012781 dimer interface [polypeptide binding]; other site 357348012782 active site 357348012783 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012784 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 357348012785 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348012786 substrate binding site [chemical binding]; other site 357348012787 oxyanion hole (OAH) forming residues; other site 357348012788 trimer interface [polypeptide binding]; other site 357348012789 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348012790 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 357348012791 substrate binding site [chemical binding]; other site 357348012792 oxyanion hole (OAH) forming residues; other site 357348012793 trimer interface [polypeptide binding]; other site 357348012794 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 357348012795 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 357348012796 dimer interface [polypeptide binding]; other site 357348012797 active site 357348012798 Transposase; Region: DEDD_Tnp_IS110; pfam01548 357348012799 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 357348012800 Acyl transferase domain; Region: Acyl_transf_1; cl08282 357348012801 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 357348012802 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 357348012803 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012804 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348012805 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 357348012806 active site 357348012807 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 357348012808 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 357348012809 putative NADP binding site [chemical binding]; other site 357348012810 active site 357348012811 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012812 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 357348012813 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 357348012814 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 357348012815 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348012816 catalytic residue [active] 357348012817 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348012818 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 357348012819 active site 357348012820 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012821 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348012822 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 357348012823 active site 357348012824 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012825 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012826 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012827 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012828 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348012829 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 357348012830 active site 357348012831 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 357348012832 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 357348012833 putative NADP binding site [chemical binding]; other site 357348012834 active site 357348012835 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012836 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348012837 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 357348012838 active site 357348012839 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 357348012840 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012841 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012842 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348012843 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 357348012844 active site 357348012845 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012846 NAD(P) binding site [chemical binding]; other site 357348012847 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348012848 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348012849 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012850 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348012851 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 357348012852 active site 357348012853 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012854 peptide synthase; Provisional; Region: PRK12467 357348012855 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348012856 AMP-binding enzyme; Region: AMP-binding; cl15778 357348012857 AMP-binding enzyme; Region: AMP-binding; cl15778 357348012858 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012859 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 357348012860 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348012861 active site 357348012862 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 357348012863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012864 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012865 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 357348012866 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348012867 active site 357348012868 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 357348012869 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 357348012870 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 357348012871 putative NADP binding site [chemical binding]; other site 357348012872 active site 357348012873 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348012874 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012875 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012876 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348012877 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 357348012878 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 357348012879 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348012880 catalytic residue [active] 357348012881 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348012882 active site 357348012883 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 357348012884 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348012885 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 357348012886 Cl- selectivity filter; other site 357348012887 Cl- binding residues [ion binding]; other site 357348012888 pore gating glutamate residue; other site 357348012889 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 357348012890 Helix-turn-helix domains; Region: HTH; cl00088 357348012891 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 357348012892 HPP family; Region: HPP; pfam04982 357348012893 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 357348012894 transcriptional regulator; Provisional; Region: PRK10632 357348012895 Helix-turn-helix domains; Region: HTH; cl00088 357348012896 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348012897 putative effector binding pocket; other site 357348012898 dimerization interface [polypeptide binding]; other site 357348012899 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 357348012900 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 357348012901 MarC family integral membrane protein; Region: MarC; cl00919 357348012902 CAAX protease self-immunity; Region: Abi; cl00558 357348012903 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 357348012904 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348012905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348012906 RNA polymerase sigma factor; Provisional; Region: PRK12547 357348012907 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348012908 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 357348012909 DNA binding residues [nucleotide binding] 357348012910 YceI-like domain; Region: YceI; cl01001 357348012911 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 357348012912 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 357348012913 RNA polymerase sigma factor; Provisional; Region: PRK12528 357348012914 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348012915 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 357348012916 DNA binding residues [nucleotide binding] 357348012917 fec operon regulator FecR; Reviewed; Region: PRK09774 357348012918 FecR protein; Region: FecR; pfam04773 357348012919 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 357348012920 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 357348012921 N-terminal plug; other site 357348012922 ligand-binding site [chemical binding]; other site 357348012923 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 357348012924 TM-ABC transporter signature motif; other site 357348012925 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 357348012926 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 357348012927 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 357348012928 Walker A/P-loop; other site 357348012929 ATP binding site [chemical binding]; other site 357348012930 Q-loop/lid; other site 357348012931 ABC transporter signature motif; other site 357348012932 Walker B; other site 357348012933 D-loop; other site 357348012934 H-loop/switch region; other site 357348012935 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 357348012936 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 357348012937 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 357348012938 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 357348012939 putative ligand binding site [chemical binding]; other site 357348012940 Phospholipid methyltransferase; Region: PEMT; cl00763 357348012941 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 357348012942 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348012943 active site 357348012944 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 357348012945 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 357348012946 putative substrate translocation pore; other site 357348012947 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 357348012948 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 357348012949 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 357348012950 dimerization interface [polypeptide binding]; other site 357348012951 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 357348012952 dimer interface [polypeptide binding]; other site 357348012953 phosphorylation site [posttranslational modification] 357348012954 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 357348012955 ATP binding site [chemical binding]; other site 357348012956 Mg2+ binding site [ion binding]; other site 357348012957 G-X-G motif; other site 357348012958 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 357348012959 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 357348012960 active site 357348012961 phosphorylation site [posttranslational modification] 357348012962 intermolecular recognition site; other site 357348012963 dimerization interface [polypeptide binding]; other site 357348012964 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 357348012965 DNA binding site [nucleotide binding] 357348012966 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 357348012967 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 357348012968 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 357348012969 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 357348012970 Outer membrane efflux protein; Region: OEP; pfam02321 357348012971 Outer membrane efflux protein; Region: OEP; pfam02321 357348012972 Adenosine specific kinase; Region: Adenosine_kin; cl00796 357348012973 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 357348012974 putative deacylase active site [active] 357348012975 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 357348012976 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 357348012977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348012978 H-NS histone family; Region: Histone_HNS; pfam00816 357348012979 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348012980 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 357348012981 putative RNA binding sites [nucleotide binding]; other site 357348012982 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 357348012983 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 357348012984 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 357348012985 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 357348012986 DNA-K related protein; Region: DUF3731; pfam12531 357348012987 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 357348012988 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 357348012989 putative active site [active] 357348012990 putative metal binding site [ion binding]; other site 357348012991 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 357348012992 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 357348012993 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 357348012994 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 357348012995 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348012996 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 357348012997 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 357348012998 S-adenosylmethionine binding site [chemical binding]; other site 357348012999 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 357348013000 Mannan-binding protein; Region: MVL; pfam12151 357348013001 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 357348013002 dimer interface [polypeptide binding]; other site 357348013003 substrate binding site [chemical binding]; other site 357348013004 ATP binding site [chemical binding]; other site 357348013005 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348013006 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 357348013007 dimerization interface [polypeptide binding]; other site 357348013008 active site 357348013009 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 357348013010 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_15; cd04673 357348013011 nudix motif; other site 357348013012 phosphoethanolamine N-methyltransferase; Region: PLN02336 357348013013 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 357348013014 S-adenosylmethionine binding site [chemical binding]; other site 357348013015 Protein of unknown function (DUF971); Region: DUF971; cl01414 357348013016 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 357348013017 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348013018 substrate binding pocket [chemical binding]; other site 357348013019 active site 357348013020 iron coordination sites [ion binding]; other site 357348013021 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 357348013022 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 357348013023 Rhomboid family; Region: Rhomboid; cl11446 357348013024 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 357348013025 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 357348013026 Walker A motif; other site 357348013027 ATP binding site [chemical binding]; other site 357348013028 Walker B motif; other site 357348013029 arginine finger; other site 357348013030 Peptidase family M41; Region: Peptidase_M41; pfam01434 357348013031 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 357348013032 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 357348013033 active site 357348013034 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 357348013035 Predicted transcriptional regulator [Transcription]; Region: COG2345 357348013036 Helix-turn-helix domains; Region: HTH; cl00088 357348013037 Helix-turn-helix domains; Region: HTH; cl00088 357348013038 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 357348013039 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 357348013040 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 357348013041 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 357348013042 multidrug efflux protein; Reviewed; Region: PRK09579 357348013043 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 357348013044 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 357348013045 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 357348013046 dimerization interface [polypeptide binding]; other site 357348013047 active site 357348013048 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 357348013049 structural tetrad; other site 357348013050 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 357348013051 structural tetrad; other site 357348013052 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 357348013053 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 357348013054 Methyltransferase domain; Region: Methyltransf_31; pfam13847 357348013055 S-adenosylmethionine binding site [chemical binding]; other site 357348013056 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 357348013057 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 357348013058 catalytic motif [active] 357348013059 Zn binding site [ion binding]; other site 357348013060 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 357348013061 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 357348013062 S-adenosylmethionine binding site [chemical binding]; other site 357348013063 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348013064 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 357348013065 active site 357348013066 metal binding site [ion binding]; metal-binding site 357348013067 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 357348013068 putative substrate translocation pore; other site 357348013069 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 357348013070 PAS fold; Region: PAS_4; pfam08448 357348013071 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 357348013072 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 357348013073 DNA binding residues [nucleotide binding] 357348013074 dimerization interface [polypeptide binding]; other site 357348013075 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 357348013076 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 357348013077 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 357348013078 active site 357348013079 FMN binding site [chemical binding]; other site 357348013080 2,4-decadienoyl-CoA binding site; other site 357348013081 catalytic residue [active] 357348013082 4Fe-4S cluster binding site [ion binding]; other site 357348013083 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348013084 Helix-turn-helix domains; Region: HTH; cl00088 357348013085 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 357348013086 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 357348013087 substrate binding site [chemical binding]; other site 357348013088 multimerization interface [polypeptide binding]; other site 357348013089 ATP binding site [chemical binding]; other site 357348013090 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 357348013091 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348013092 substrate binding pocket [chemical binding]; other site 357348013093 active site 357348013094 iron coordination sites [ion binding]; other site 357348013095 Membrane transport protein; Region: Mem_trans; cl09117 357348013096 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 357348013097 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 357348013098 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 357348013099 Ligand Binding Site [chemical binding]; other site 357348013100 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 357348013101 Ligand Binding Site [chemical binding]; other site 357348013102 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 357348013103 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 357348013104 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 357348013105 hydrogenase 4 subunit F; Validated; Region: PRK06458 357348013106 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 357348013107 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 357348013108 NADH dehydrogenase; Region: NADHdh; cl00469 357348013109 hydrogenase 4 subunit B; Validated; Region: PRK06521 357348013110 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 357348013111 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 357348013112 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 357348013113 regulatory phosphorylation site [posttranslational modification]; other site 357348013114 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348013115 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 357348013116 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 357348013117 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 357348013118 putative substrate translocation pore; other site 357348013119 PPIC-type PPIASE domain; Region: Rotamase; cl08278 357348013120 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 357348013121 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 357348013122 nitrate reductase, beta subunit; Region: narH; TIGR01660 357348013123 4Fe-4S binding domain; Region: Fer4; cl02805 357348013124 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 357348013125 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 357348013126 [4Fe-4S] binding site [ion binding]; other site 357348013127 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 357348013128 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 357348013129 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 357348013130 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 357348013131 molybdopterin cofactor binding site; other site 357348013132 CHASE domain; Region: CHASE; cl01369 357348013133 PAS domain S-box; Region: sensory_box; TIGR00229 357348013134 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 357348013135 putative active site [active] 357348013136 heme pocket [chemical binding]; other site 357348013137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 357348013138 Histidine kinase; Region: HisKA_3; pfam07730 357348013139 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 357348013140 ATP binding site [chemical binding]; other site 357348013141 Mg2+ binding site [ion binding]; other site 357348013142 G-X-G motif; other site 357348013143 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348013144 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 357348013145 active site 357348013146 phosphorylation site [posttranslational modification] 357348013147 intermolecular recognition site; other site 357348013148 dimerization interface [polypeptide binding]; other site 357348013149 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 357348013150 DNA binding residues [nucleotide binding] 357348013151 dimerization interface [polypeptide binding]; other site 357348013152 Response regulator receiver domain; Region: Response_reg; pfam00072 357348013153 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 357348013154 active site 357348013155 phosphorylation site [posttranslational modification] 357348013156 intermolecular recognition site; other site 357348013157 dimerization interface [polypeptide binding]; other site 357348013158 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 357348013159 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 357348013160 ligand binding site [chemical binding]; other site 357348013161 flexible hinge region; other site 357348013162 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 357348013163 putative switch regulator; other site 357348013164 non-specific DNA interactions [nucleotide binding]; other site 357348013165 DNA binding site [nucleotide binding] 357348013166 sequence specific DNA binding site [nucleotide binding]; other site 357348013167 putative cAMP binding site [chemical binding]; other site 357348013168 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 357348013169 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 357348013170 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 357348013171 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 357348013172 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348013173 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 357348013174 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 357348013175 putative substrate translocation pore; other site 357348013176 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 357348013177 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348013178 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348013179 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348013180 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 357348013181 active site 357348013182 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013183 peptide synthase; Validated; Region: PRK05691 357348013184 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013185 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013186 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 357348013187 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348013188 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 357348013189 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348013190 active site 357348013191 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 357348013192 putative NADP binding site [chemical binding]; other site 357348013193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348013194 NAD(P) binding site [chemical binding]; other site 357348013195 active site 357348013196 active site 357348013197 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013198 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 357348013199 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348013200 active site 357348013201 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 357348013202 Acyl transferase domain; Region: Acyl_transf_1; cl08282 357348013203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348013204 NAD(P) binding site [chemical binding]; other site 357348013205 active site 357348013206 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013207 peptide synthase; Provisional; Region: PRK12467 357348013208 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348013209 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013210 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013211 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348013212 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 357348013213 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 357348013214 active site 357348013215 Zn binding site [ion binding]; other site 357348013216 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 357348013217 Autoinducer binding domain; Region: Autoind_bind; pfam03472 357348013218 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 357348013219 DNA binding residues [nucleotide binding] 357348013220 dimerization interface [polypeptide binding]; other site 357348013221 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348013222 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 357348013223 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 357348013224 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348013225 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 357348013226 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013227 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013228 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013229 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 357348013230 shikimate transporter; Provisional; Region: PRK09952 357348013231 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013232 acyl-CoA synthetase; Validated; Region: PRK05850 357348013233 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013234 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 357348013235 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 357348013236 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 357348013237 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348013238 catalytic residue [active] 357348013239 peptide synthase; Provisional; Region: PRK12316 357348013240 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013241 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013242 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348013243 Condensation domain; Region: Condensation; pfam00668 357348013244 peptide synthase; Provisional; Region: PRK12316 357348013245 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 357348013246 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013247 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013248 Thioesterase domain; Region: Thioesterase; pfam00975 357348013249 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348013250 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348013251 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 357348013252 active site 357348013253 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 357348013254 Acyl transferase domain; Region: Acyl_transf_1; cl08282 357348013255 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013256 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 357348013257 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 357348013258 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348013259 catalytic residue [active] 357348013260 peptide synthase; Provisional; Region: PRK12316 357348013261 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348013262 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013263 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013264 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013265 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 357348013266 major capsid protein; Region: PHA00665 357348013267 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 357348013268 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348013269 DNA-binding site [nucleotide binding]; DNA binding site 357348013270 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 357348013271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348013272 homodimer interface [polypeptide binding]; other site 357348013273 catalytic residue [active] 357348013274 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 357348013275 Cupin domain; Region: Cupin_2; cl09118 357348013276 Entericidin EcnA/B family; Region: Entericidin; cl02322 357348013277 aspartate carbamoyltransferase; Provisional; Region: PRK11891 357348013278 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 357348013279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348013280 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 357348013281 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 357348013282 N-terminal plug; other site 357348013283 ligand-binding site [chemical binding]; other site 357348013284 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 357348013285 Sel1 repeat; Region: Sel1; cl02723 357348013286 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 357348013287 Transposase, Mutator family; Region: Transposase_mut; pfam00872 357348013288 PAAR motif; Region: PAAR_motif; cl15808 357348013289 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 357348013290 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 357348013291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 357348013292 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348013293 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348013294 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 357348013295 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 357348013296 H-NS histone family; Region: Histone_HNS; pfam00816 357348013297 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348013298 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348013299 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 357348013300 putative substrate translocation pore; other site 357348013301 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 357348013302 thiamine phosphate binding site [chemical binding]; other site 357348013303 active site 357348013304 pyrophosphate binding site [ion binding]; other site 357348013305 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 357348013306 metal-binding site 357348013307 Cache domain; Region: Cache_2; cl07034 357348013308 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 357348013309 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 357348013310 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348013311 dimer interface [polypeptide binding]; other site 357348013312 putative CheW interface [polypeptide binding]; other site 357348013313 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 357348013314 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 357348013315 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348013316 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 357348013317 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 357348013318 ligand binding site [chemical binding]; other site 357348013319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348013320 NAD(P) binding site [chemical binding]; other site 357348013321 active site 357348013322 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 357348013323 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 357348013324 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 357348013325 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 357348013326 substrate binding pocket [chemical binding]; other site 357348013327 chain length determination region; other site 357348013328 substrate-Mg2+ binding site; other site 357348013329 catalytic residues [active] 357348013330 aspartate-rich region 1; other site 357348013331 active site lid residues [active] 357348013332 aspartate-rich region 2; other site 357348013333 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 357348013334 substrate binding pocket [chemical binding]; other site 357348013335 substrate-Mg2+ binding site; other site 357348013336 aspartate-rich region 1; other site 357348013337 aspartate-rich region 2; other site 357348013338 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 357348013339 putative cation:proton antiport protein; Provisional; Region: PRK10669 357348013340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348013341 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 357348013342 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 357348013343 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 357348013344 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 357348013345 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 357348013346 dimer interface [polypeptide binding]; other site 357348013347 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 357348013348 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 357348013349 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 357348013350 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 357348013351 Electron transfer DM13; Region: DM13; cl02735 357348013352 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 357348013353 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 357348013354 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 357348013355 dimer interface [polypeptide binding]; other site 357348013356 conserved gate region; other site 357348013357 putative PBP binding loops; other site 357348013358 ABC-ATPase subunit interface; other site 357348013359 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 357348013360 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 357348013361 inhibitor binding site; inhibition site 357348013362 catalytic Zn binding site [ion binding]; other site 357348013363 structural Zn binding site [ion binding]; other site 357348013364 NADP binding site [chemical binding]; other site 357348013365 tetramer interface [polypeptide binding]; other site 357348013366 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 357348013367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348013368 Walker A/P-loop; other site 357348013369 ATP binding site [chemical binding]; other site 357348013370 Q-loop/lid; other site 357348013371 ABC transporter signature motif; other site 357348013372 Walker B; other site 357348013373 D-loop; other site 357348013374 H-loop/switch region; other site 357348013375 Cupin domain; Region: Cupin_2; cl09118 357348013376 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348013377 Helix-turn-helix domain; Region: HTH_18; pfam12833 357348013378 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 357348013379 N- and C-terminal domain interface [polypeptide binding]; other site 357348013380 active site 357348013381 catalytic site [active] 357348013382 metal binding site [ion binding]; metal-binding site 357348013383 xylulose binding site [chemical binding]; other site 357348013384 putative ATP binding site [chemical binding]; other site 357348013385 homodimer interface [polypeptide binding]; other site 357348013386 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 357348013387 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348013388 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 357348013389 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 357348013390 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348013391 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 357348013392 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 357348013393 [4Fe-4S] binding site [ion binding]; other site 357348013394 molybdopterin cofactor binding site; other site 357348013395 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 357348013396 molybdopterin cofactor binding site; other site 357348013397 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 357348013398 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 357348013399 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 357348013400 FAD binding pocket [chemical binding]; other site 357348013401 FAD binding motif [chemical binding]; other site 357348013402 catalytic residues [active] 357348013403 NAD binding pocket [chemical binding]; other site 357348013404 phosphate binding motif [ion binding]; other site 357348013405 beta-alpha-beta structure motif; other site 357348013406 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 357348013407 nitrite reductase subunit NirD; Provisional; Region: PRK14989 357348013408 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348013409 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 357348013410 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 357348013411 nitrate transmembrane transporter; Provisional; Region: PLN00028 357348013412 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 357348013413 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 357348013414 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 357348013415 active site 357348013416 phosphorylation site [posttranslational modification] 357348013417 intermolecular recognition site; other site 357348013418 dimerization interface [polypeptide binding]; other site 357348013419 ANTAR domain; Region: ANTAR; cl04297 357348013420 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 357348013421 NMT1-like family; Region: NMT1_2; cl15260 357348013422 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 357348013423 GTP cyclohydrolase I; Provisional; Region: PLN03044 357348013424 active site 357348013425 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 357348013426 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 357348013427 allantoate amidohydrolase; Reviewed; Region: PRK12893 357348013428 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 357348013429 active site 357348013430 metal binding site [ion binding]; metal-binding site 357348013431 dimer interface [polypeptide binding]; other site 357348013432 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 357348013433 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348013434 putative substrate translocation pore; other site 357348013435 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348013436 Helix-turn-helix domains; Region: HTH; cl00088 357348013437 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 357348013438 dimerization interface [polypeptide binding]; other site 357348013439 Helix-turn-helix domains; Region: HTH; cl00088 357348013440 LysR family transcriptional regulator; Provisional; Region: PRK14997 357348013441 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 357348013442 putative effector binding pocket; other site 357348013443 putative dimerization interface [polypeptide binding]; other site 357348013444 short chain dehydrogenase; Provisional; Region: PRK12937 357348013445 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 357348013446 NADP binding site [chemical binding]; other site 357348013447 homodimer interface [polypeptide binding]; other site 357348013448 active site 357348013449 substrate binding site [chemical binding]; other site 357348013450 CoA-transferase family III; Region: CoA_transf_3; pfam02515 357348013451 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 357348013452 Prostaglandin dehydrogenases; Region: PGDH; cd05288 357348013453 NAD(P) binding site [chemical binding]; other site 357348013454 substrate binding site [chemical binding]; other site 357348013455 dimer interface [polypeptide binding]; other site 357348013456 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 357348013457 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 357348013458 dimer interface [polypeptide binding]; other site 357348013459 active site 357348013460 metal binding site [ion binding]; metal-binding site 357348013461 Peptidase M66; Region: Peptidase_M66; pfam10462 357348013462 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 357348013463 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 357348013464 Domain of unknown function (DUF802); Region: DUF802; pfam05650 357348013465 Phage-related tail protein [Function unknown]; Region: COG5283 357348013466 hypothetical protein; Provisional; Region: PRK09040 357348013467 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348013468 ligand binding site [chemical binding]; other site 357348013469 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 357348013470 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 357348013471 Condensation domain; Region: Condensation; pfam00668 357348013472 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 357348013473 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013474 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013475 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013476 MbtH-like protein; Region: MbtH; cl01279 357348013477 Major Facilitator Superfamily; Region: MFS_1; pfam07690 357348013478 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 357348013479 peptide synthase; Provisional; Region: PRK12467 357348013480 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348013481 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013482 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013483 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348013484 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 357348013485 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013486 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013487 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 357348013488 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348013489 active site 357348013490 Acyl transferase domain; Region: Acyl_transf_1; cl08282 357348013491 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 357348013492 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 357348013493 putative NADP binding site [chemical binding]; other site 357348013494 active site 357348013495 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 357348013496 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013497 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 357348013498 Biofilm formation and stress response factor; Region: BsmA; cl01794 357348013499 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348013500 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 357348013501 active site 357348013502 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348013503 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 357348013504 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 357348013505 active site 357348013506 acyl-CoA synthetase; Validated; Region: PRK05850 357348013507 AMP-binding enzyme; Region: AMP-binding; cl15778 357348013508 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 357348013509 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348013510 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 357348013511 DNA binding residues [nucleotide binding] 357348013512 Uncharacterized conserved protein [Function unknown]; Region: COG1739 357348013513 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 357348013514 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 357348013515 EamA-like transporter family; Region: EamA; cl01037 357348013516 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 357348013517 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348013518 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348013519 Helix-turn-helix domains; Region: HTH; cl00088 357348013520 threonine dehydratase; Reviewed; Region: PRK09224 357348013521 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 357348013522 tetramer interface [polypeptide binding]; other site 357348013523 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348013524 catalytic residue [active] 357348013525 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 357348013526 putative Ile/Val binding site [chemical binding]; other site 357348013527 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 357348013528 putative Ile/Val binding site [chemical binding]; other site 357348013529 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 357348013530 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 357348013531 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 357348013532 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 357348013533 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348013534 putative acyl-acceptor binding pocket; other site 357348013535 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 357348013536 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39C; cd02419 357348013537 putative active site [active] 357348013538 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 357348013539 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 357348013540 Walker A/P-loop; other site 357348013541 ATP binding site [chemical binding]; other site 357348013542 Q-loop/lid; other site 357348013543 ABC transporter signature motif; other site 357348013544 Walker B; other site 357348013545 D-loop; other site 357348013546 H-loop/switch region; other site 357348013547 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 357348013548 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 357348013549 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 357348013550 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 357348013551 ATP-dependent helicase; Provisional; Region: PRK13767 357348013552 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 357348013553 ATP binding site [chemical binding]; other site 357348013554 putative Mg++ binding site [ion binding]; other site 357348013555 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 357348013556 nucleotide binding region [chemical binding]; other site 357348013557 ATP-binding site [chemical binding]; other site 357348013558 DEAD/H associated; Region: DEAD_assoc; pfam08494 357348013559 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 357348013560 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 357348013561 putative transporter; Provisional; Region: PRK11021 357348013562 YCII-related domain; Region: YCII; cl00999 357348013563 NeuB family; Region: NeuB; cl00496 357348013564 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 357348013565 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 357348013566 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348013567 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 357348013568 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 357348013569 metal binding site [ion binding]; metal-binding site 357348013570 active site 357348013571 I-site; other site 357348013572 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 357348013573 Helix-turn-helix domains; Region: HTH; cl00088 357348013574 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 357348013575 dimerization interface [polypeptide binding]; other site 357348013576 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 357348013577 heterodimer interface [polypeptide binding]; other site 357348013578 multimer interface [polypeptide binding]; other site 357348013579 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 357348013580 active site 357348013581 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 357348013582 active site 357348013583 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 357348013584 SxDxEG motif; other site 357348013585 active site 357348013586 metal binding site [ion binding]; metal-binding site 357348013587 homopentamer interface [polypeptide binding]; other site 357348013588 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 357348013589 homotetramer interface [polypeptide binding]; other site 357348013590 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 357348013591 cleavage site 357348013592 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 357348013593 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 357348013594 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 357348013595 dimer interface [polypeptide binding]; other site 357348013596 conserved gate region; other site 357348013597 putative PBP binding loops; other site 357348013598 ABC-ATPase subunit interface; other site 357348013599 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 357348013600 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 357348013601 dimer interface [polypeptide binding]; other site 357348013602 conserved gate region; other site 357348013603 putative PBP binding loops; other site 357348013604 ABC-ATPase subunit interface; other site 357348013605 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 357348013606 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 357348013607 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 357348013608 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 357348013609 Walker A/P-loop; other site 357348013610 ATP binding site [chemical binding]; other site 357348013611 Q-loop/lid; other site 357348013612 ABC transporter signature motif; other site 357348013613 Walker B; other site 357348013614 D-loop; other site 357348013615 H-loop/switch region; other site 357348013616 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 357348013617 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 357348013618 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 357348013619 Walker A/P-loop; other site 357348013620 ATP binding site [chemical binding]; other site 357348013621 Q-loop/lid; other site 357348013622 ABC transporter signature motif; other site 357348013623 Walker B; other site 357348013624 D-loop; other site 357348013625 H-loop/switch region; other site 357348013626 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 357348013627 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 357348013628 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 357348013629 catalytic nucleophile [active] 357348013630 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 357348013631 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 357348013632 putative active site [active] 357348013633 BCCT family transporter; Region: BCCT; cl00569 357348013634 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348013635 Phosphoesterase family; Region: Phosphoesterase; cl15450 357348013636 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 357348013637 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348013638 active site 357348013639 HIGH motif; other site 357348013640 nucleotide binding site [chemical binding]; other site 357348013641 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 357348013642 active site 357348013643 KMSKS motif; other site 357348013644 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 357348013645 tRNA binding surface [nucleotide binding]; other site 357348013646 anticodon binding site; other site 357348013647 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 357348013648 EamA-like transporter family; Region: EamA; cl01037 357348013649 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 357348013650 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 357348013651 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 357348013652 FAD binding domain; Region: FAD_binding_4; pfam01565 357348013653 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 357348013654 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348013655 Methyltransferase domain; Region: Methyltransf_31; pfam13847 357348013656 Cupin domain; Region: Cupin_2; cl09118 357348013657 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348013658 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348013659 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 357348013660 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 357348013661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348013662 catalytic residue [active] 357348013663 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 357348013664 Helix-turn-helix domains; Region: HTH; cl00088 357348013665 AsnC family; Region: AsnC_trans_reg; pfam01037 357348013666 LabA_like proteins; Region: LabA_like; cd06167 357348013667 putative metal binding site [ion binding]; other site 357348013668 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 357348013669 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 357348013670 putative substrate translocation pore; other site 357348013671 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 357348013672 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348013673 DNA-binding site [nucleotide binding]; DNA binding site 357348013674 UTRA domain; Region: UTRA; cl01230 357348013675 benzoate transport; Region: 2A0115; TIGR00895 357348013676 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 357348013677 putative substrate translocation pore; other site 357348013678 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 357348013679 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 357348013680 active site 357348013681 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 357348013682 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 357348013683 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 357348013684 active site 357348013685 metal binding site [ion binding]; metal-binding site 357348013686 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 357348013687 Leucine carboxyl methyltransferase; Region: LCM; cl01306 357348013688 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 357348013689 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 357348013690 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 357348013691 Coenzyme A binding pocket [chemical binding]; other site 357348013692 Predicted transporter component [General function prediction only]; Region: COG2391 357348013693 Sulphur transport; Region: Sulf_transp; cl01018 357348013694 Predicted transporter component [General function prediction only]; Region: COG2391 357348013695 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 357348013696 dimerization interface [polypeptide binding]; other site 357348013697 putative DNA binding site [nucleotide binding]; other site 357348013698 putative Zn2+ binding site [ion binding]; other site 357348013699 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 357348013700 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 357348013701 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 357348013702 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348013703 catalytic residue [active] 357348013704 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 357348013705 non-specific DNA binding site [nucleotide binding]; other site 357348013706 salt bridge; other site 357348013707 sequence-specific DNA binding site [nucleotide binding]; other site 357348013708 serine O-acetyltransferase; Region: cysE; TIGR01172 357348013709 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 357348013710 trimer interface [polypeptide binding]; other site 357348013711 active site 357348013712 substrate binding site [chemical binding]; other site 357348013713 CoA binding site [chemical binding]; other site 357348013714 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 357348013715 active site residue [active] 357348013716 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 357348013717 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 357348013718 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 357348013719 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 357348013720 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 357348013721 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 357348013722 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 357348013723 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 357348013724 Ligand binding site; other site 357348013725 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348013726 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 357348013727 putative substrate translocation pore; other site 357348013728 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 357348013729 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 357348013730 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 357348013731 active site 357348013732 TDP-binding site; other site 357348013733 acceptor substrate-binding pocket; other site 357348013734 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348013735 transcriptional regulator BetI; Validated; Region: PRK00767 357348013736 Helix-turn-helix domains; Region: HTH; cl00088 357348013737 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 357348013738 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348013739 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 357348013740 NAD(P) binding site [chemical binding]; other site 357348013741 catalytic residues [active] 357348013742 choline dehydrogenase; Validated; Region: PRK02106 357348013743 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 357348013744 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 357348013745 benzoate transport; Region: 2A0115; TIGR00895 357348013746 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 357348013747 putative substrate translocation pore; other site 357348013748 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 357348013749 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 357348013750 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 357348013751 active site 357348013752 phosphorylation site [posttranslational modification] 357348013753 intermolecular recognition site; other site 357348013754 dimerization interface [polypeptide binding]; other site 357348013755 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 357348013756 PAS fold; Region: PAS_3; pfam08447 357348013757 putative active site [active] 357348013758 heme pocket [chemical binding]; other site 357348013759 Histidine kinase; Region: HisKA_3; pfam07730 357348013760 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 357348013761 ATP binding site [chemical binding]; other site 357348013762 Mg2+ binding site [ion binding]; other site 357348013763 G-X-G motif; other site 357348013764 Response regulator receiver domain; Region: Response_reg; pfam00072 357348013765 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 357348013766 active site 357348013767 phosphorylation site [posttranslational modification] 357348013768 intermolecular recognition site; other site 357348013769 dimerization interface [polypeptide binding]; other site 357348013770 CHASE3 domain; Region: CHASE3; cl05000 357348013771 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 357348013772 PAS domain; Region: PAS_9; pfam13426 357348013773 putative active site [active] 357348013774 heme pocket [chemical binding]; other site 357348013775 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 357348013776 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 357348013777 putative active site [active] 357348013778 heme pocket [chemical binding]; other site 357348013779 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 357348013780 dimer interface [polypeptide binding]; other site 357348013781 phosphorylation site [posttranslational modification] 357348013782 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 357348013783 ATP binding site [chemical binding]; other site 357348013784 Mg2+ binding site [ion binding]; other site 357348013785 G-X-G motif; other site 357348013786 OsmC-like protein; Region: OsmC; cl00767 357348013787 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 357348013788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348013789 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 357348013790 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 357348013791 DNA-binding site [nucleotide binding]; DNA binding site 357348013792 RNA-binding motif; other site 357348013793 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 357348013794 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 357348013795 active site 357348013796 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 357348013797 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 357348013798 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 357348013799 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 357348013800 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 357348013801 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 357348013802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348013803 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 357348013804 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 357348013805 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 357348013806 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 357348013807 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 357348013808 conserved cys residue [active] 357348013809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348013810 hypothetical protein; Provisional; Region: PRK11239 357348013811 Protein of unknown function, DUF480; Region: DUF480; cl01209 357348013812 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 357348013813 GSH binding site (G-site) [chemical binding]; other site 357348013814 C-terminal domain interface [polypeptide binding]; other site 357348013815 dimer interface [polypeptide binding]; other site 357348013816 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 357348013817 dimer interface [polypeptide binding]; other site 357348013818 N-terminal domain interface [polypeptide binding]; other site 357348013819 substrate binding pocket (H-site) [chemical binding]; other site 357348013820 Low affinity iron permease; Region: Iron_permease; cl12096 357348013821 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 357348013822 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 357348013823 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 357348013824 Domain of unknown function (DUF305); Region: DUF305; cl15795 357348013825 MgtC family; Region: MgtC; pfam02308 357348013826 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 357348013827 putative active site [active] 357348013828 catalytic site [active] 357348013829 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 357348013830 putative active site [active] 357348013831 catalytic site [active] 357348013832 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 357348013833 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 357348013834 putative catalytic site [active] 357348013835 putative metal binding site [ion binding]; other site 357348013836 putative phosphate binding site [ion binding]; other site 357348013837 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 357348013838 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 357348013839 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348013840 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348013841 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 357348013842 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348013843 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 357348013844 Bacterial type III secretion protein (HrpB7); Region: HrpB7; cl09720 357348013845 type III secretion system ATPase; Provisional; Region: PRK09099 357348013846 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 357348013847 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348013848 Walker A motif; other site 357348013849 ATP binding site [chemical binding]; other site 357348013850 Walker B motif; other site 357348013851 type III secretion system protein HrpB; Validated; Region: PRK09098 357348013852 Flagellar assembly protein FliH; Region: FliH; pfam02108 357348013853 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 357348013854 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 357348013855 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 357348013856 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 357348013857 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 357348013858 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 357348013859 type III secretion system protein HrcU; Validated; Region: PRK09108 357348013860 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 357348013861 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 357348013862 FHIPEP family; Region: FHIPEP; pfam00771 357348013863 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 357348013864 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 357348013865 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 357348013866 FliP family; Region: FliP; cl00593 357348013867 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 357348013868 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 357348013869 Tir chaperone protein (CesT) family; Region: CesT; cl08444 357348013870 Cupin domain; Region: Cupin_2; cl09118 357348013871 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 357348013872 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348013873 Transcriptional regulators [Transcription]; Region: FadR; COG2186 357348013874 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348013875 DNA-binding site [nucleotide binding]; DNA binding site 357348013876 fructose-bisphosphate aldolase; Region: PLN02858 357348013877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348013878 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 357348013879 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 357348013880 intersubunit interface [polypeptide binding]; other site 357348013881 active site 357348013882 Zn2+ binding site [ion binding]; other site 357348013883 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 357348013884 D-galactonate transporter; Region: 2A0114; TIGR00893 357348013885 putative substrate translocation pore; other site 357348013886 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 357348013887 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 357348013888 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 357348013889 putative NAD(P) binding site [chemical binding]; other site 357348013890 active site 357348013891 putative substrate binding site [chemical binding]; other site 357348013892 Cupin domain; Region: Cupin_2; cl09118 357348013893 Cupin domain; Region: Cupin_2; cl09118 357348013894 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 357348013895 NMT1-like family; Region: NMT1_2; cl15260 357348013896 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 357348013897 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 357348013898 conserved cys residue [active] 357348013899 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 357348013900 dimer interface [polypeptide binding]; other site 357348013901 conserved gate region; other site 357348013902 putative PBP binding loops; other site 357348013903 ABC-ATPase subunit interface; other site 357348013904 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 357348013905 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 357348013906 Walker A/P-loop; other site 357348013907 ATP binding site [chemical binding]; other site 357348013908 Q-loop/lid; other site 357348013909 ABC transporter signature motif; other site 357348013910 Walker B; other site 357348013911 D-loop; other site 357348013912 H-loop/switch region; other site 357348013913 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 357348013914 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 357348013915 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 357348013916 dimerization interface [polypeptide binding]; other site 357348013917 putative DNA binding site [nucleotide binding]; other site 357348013918 putative Zn2+ binding site [ion binding]; other site 357348013919 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 357348013920 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348013921 putative metal binding site [ion binding]; other site 357348013922 Low molecular weight phosphatase family; Region: LMWPc; cd00115 357348013923 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 357348013924 active site 357348013925 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 357348013926 Membrane transport protein; Region: Mem_trans; cl09117 357348013927 Haemagglutinin; Region: HIM; pfam05662 357348013928 YadA-like C-terminal region; Region: YadA; pfam03895 357348013929 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 357348013930 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 357348013931 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 357348013932 Haemagglutinin; Region: HIM; pfam05662 357348013933 YadA-like C-terminal region; Region: YadA; pfam03895 357348013934 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 357348013935 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 357348013936 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 357348013937 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 357348013938 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 357348013939 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 357348013940 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 357348013941 carboxyltransferase (CT) interaction site; other site 357348013942 biotinylation site [posttranslational modification]; other site 357348013943 enoyl-CoA hydratase; Provisional; Region: PRK05995 357348013944 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348013945 substrate binding site [chemical binding]; other site 357348013946 oxyanion hole (OAH) forming residues; other site 357348013947 trimer interface [polypeptide binding]; other site 357348013948 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 357348013949 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 357348013950 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 357348013951 isovaleryl-CoA dehydrogenase; Region: PLN02519 357348013952 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 357348013953 substrate binding site [chemical binding]; other site 357348013954 FAD binding site [chemical binding]; other site 357348013955 catalytic base [active] 357348013956 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348013957 Helix-turn-helix domains; Region: HTH; cl00088 357348013958 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 357348013959 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 357348013960 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 357348013961 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 357348013962 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348013963 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348013964 Cytochrome c; Region: Cytochrom_C; cl11414 357348013965 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 357348013966 [2Fe-2S] cluster binding site [ion binding]; other site 357348013967 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 357348013968 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 357348013969 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 357348013970 alpha subunit interface [polypeptide binding]; other site 357348013971 active site 357348013972 substrate binding site [chemical binding]; other site 357348013973 Fe binding site [ion binding]; other site 357348013974 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 357348013975 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 357348013976 dimer interface [polypeptide binding]; other site 357348013977 active site 357348013978 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 357348013979 catalytic residues [active] 357348013980 substrate binding site [chemical binding]; other site 357348013981 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 357348013982 JmjC domain, hydroxylase; Region: JmjC; cl15814 357348013983 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 357348013984 benzoate transport; Region: 2A0115; TIGR00895 357348013985 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 357348013986 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 357348013987 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348013988 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348013989 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 357348013990 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 357348013991 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 357348013992 ATP binding site [chemical binding]; other site 357348013993 Mg2+ binding site [ion binding]; other site 357348013994 G-X-G motif; other site 357348013995 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 357348013996 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 357348013997 active site 357348013998 phosphorylation site [posttranslational modification] 357348013999 intermolecular recognition site; other site 357348014000 dimerization interface [polypeptide binding]; other site 357348014001 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 357348014002 DNA binding site [nucleotide binding] 357348014003 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 357348014004 FlgD Ig-like domain; Region: FlgD_ig; cl15790 357348014005 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 357348014006 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 357348014007 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_like2; cd06201 357348014008 FAD binding pocket [chemical binding]; other site 357348014009 FAD binding motif [chemical binding]; other site 357348014010 catalytic residues [active] 357348014011 NAD binding pocket [chemical binding]; other site 357348014012 phosphate binding motif [ion binding]; other site 357348014013 beta-alpha-beta structure motif; other site 357348014014 ApbE family; Region: ApbE; cl00643 357348014015 ApbE family; Region: ApbE; cl00643 357348014016 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 357348014017 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 357348014018 tetrameric interface [polypeptide binding]; other site 357348014019 NAD binding site [chemical binding]; other site 357348014020 catalytic residues [active] 357348014021 aminotransferase A; Validated; Region: PRK07683 357348014022 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 357348014023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348014024 homodimer interface [polypeptide binding]; other site 357348014025 catalytic residue [active] 357348014026 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 357348014027 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 357348014028 Helix-turn-helix domains; Region: HTH; cl00088 357348014029 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 357348014030 dimerization interface [polypeptide binding]; other site 357348014031 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 357348014032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348014033 FAD dependent oxidoreductase; Region: DAO; pfam01266 357348014034 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348014035 Helix-turn-helix domains; Region: HTH; cl00088 357348014036 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 357348014037 putative active site [active] 357348014038 catalytic site [active] 357348014039 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 357348014040 putative active site [active] 357348014041 catalytic site [active] 357348014042 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 357348014043 Helix-turn-helix domains; Region: HTH; cl00088 357348014044 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 357348014045 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 357348014046 D-galactonate transporter; Region: 2A0114; TIGR00893 357348014047 putative substrate translocation pore; other site 357348014048 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 357348014049 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 357348014050 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 357348014051 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 357348014052 Transcriptional regulators [Transcription]; Region: GntR; COG1802 357348014053 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348014054 DNA-binding site [nucleotide binding]; DNA binding site 357348014055 FCD domain; Region: FCD; cl11656 357348014056 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 357348014057 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 357348014058 putative active site pocket [active] 357348014059 putative metal binding site [ion binding]; other site 357348014060 putative oxidoreductase; Provisional; Region: PRK10083 357348014061 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 357348014062 putative NAD(P) binding site [chemical binding]; other site 357348014063 catalytic Zn binding site [ion binding]; other site 357348014064 structural Zn binding site [ion binding]; other site 357348014065 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 357348014066 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 357348014067 homodimer interface [polypeptide binding]; other site 357348014068 NAD binding pocket [chemical binding]; other site 357348014069 ATP binding pocket [chemical binding]; other site 357348014070 Mg binding site [ion binding]; other site 357348014071 active-site loop [active] 357348014072 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348014073 Helix-turn-helix domains; Region: HTH; cl00088 357348014074 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 357348014075 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 357348014076 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 357348014077 putative hydrophobic ligand binding site [chemical binding]; other site 357348014078 protein interface [polypeptide binding]; other site 357348014079 gate; other site 357348014080 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 357348014081 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348014082 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348014083 Cytochrome c; Region: Cytochrom_C; cl11414 357348014084 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 357348014085 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 357348014086 Cu(I) binding site [ion binding]; other site 357348014087 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 357348014088 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 357348014089 amidase catalytic site [active] 357348014090 Zn binding residues [ion binding]; other site 357348014091 substrate binding site [chemical binding]; other site 357348014092 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 357348014093 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 357348014094 Haemagglutinin; Region: HIM; pfam05662 357348014095 YadA-like C-terminal region; Region: YadA; pfam03895 357348014096 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 357348014097 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 357348014098 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 357348014099 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 357348014100 active site 357348014101 phosphorylation site [posttranslational modification] 357348014102 intermolecular recognition site; other site 357348014103 dimerization interface [polypeptide binding]; other site 357348014104 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 357348014105 DNA binding site [nucleotide binding] 357348014106 MASE1; Region: MASE1; pfam05231 357348014107 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 357348014108 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 357348014109 dimer interface [polypeptide binding]; other site 357348014110 phosphorylation site [posttranslational modification] 357348014111 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 357348014112 Protein of unknown function (DUF770); Region: DUF770; cl01402 357348014113 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 357348014114 Protein of unknown function (DUF877); Region: DUF877; pfam05943 357348014115 Protein of unknown function (DUF796); Region: DUF796; cl01226 357348014116 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 357348014117 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 357348014118 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 357348014119 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 357348014120 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 357348014121 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 357348014122 Walker A motif; other site 357348014123 ATP binding site [chemical binding]; other site 357348014124 Walker B motif; other site 357348014125 arginine finger; other site 357348014126 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 357348014127 Walker A motif; other site 357348014128 ATP binding site [chemical binding]; other site 357348014129 Walker B motif; other site 357348014130 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 357348014131 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 357348014132 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348014133 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348014134 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 357348014135 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 357348014136 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348014137 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348014138 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 357348014139 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348014140 secreted effector protein PipB2; Provisional; Region: PRK15196 357348014141 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 357348014142 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348014143 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 357348014144 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 357348014145 PAAR motif; Region: PAAR_motif; cl15808 357348014146 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 357348014147 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 357348014148 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 357348014149 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 357348014150 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 357348014151 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 357348014152 Bacterial Ig-like domain; Region: Big_5; cl01012 357348014153 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly...; Region: Peptidase_C19; cl02553 357348014154 active site 357348014155 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 357348014156 active site 357348014157 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348014158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348014159 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348014160 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 357348014161 active site 357348014162 phosphorylation site [posttranslational modification] 357348014163 intermolecular recognition site; other site 357348014164 dimerization interface [polypeptide binding]; other site 357348014165 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 357348014166 DNA binding residues [nucleotide binding] 357348014167 dimerization interface [polypeptide binding]; other site 357348014168 Tir chaperone protein (CesT) family; Region: CesT; cl08444 357348014169 SicP binding; Region: SicP-binding; pfam09119 357348014170 type III secretion protein BopE; Provisional; Region: PRK15278 357348014171 SopE GEF domain; Region: SopE_GEF; pfam07487 357348014172 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 357348014173 N-acetyl-D-glucosamine binding site [chemical binding]; other site 357348014174 catalytic residue [active] 357348014175 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014176 Invasion plasmid antigen IpaD; Region: IpaD; cl05827 357348014177 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348014178 Salmonella-Shigella invasin protein C (IpaC_SipC); Region: IpaC_SipC; cl10712 357348014179 pathogenicity island 1 effector protein SipB; Provisional; Region: PRK15374 357348014180 chaperone protein SicA; Provisional; Region: PRK15331 357348014181 Tetratricopeptide repeat; Region: TPR_3; pfam07720 357348014182 Tetratricopeptide repeat; Region: TPR_3; pfam07720 357348014183 type III secretion system protein SpaS; Validated; Region: PRK08156 357348014184 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 357348014185 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 357348014186 FliP family; Region: FliP; cl00593 357348014187 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 357348014188 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 357348014189 ATP synthase SpaL; Validated; Region: PRK08149 357348014190 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 357348014191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348014192 Walker A motif; other site 357348014193 ATP binding site [chemical binding]; other site 357348014194 Walker B motif; other site 357348014195 Invasion protein B family; Region: Invas_SpaK; cl04129 357348014196 type III secretion system protein InvA; Provisional; Region: PRK15337 357348014197 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 357348014198 HrpJ-like domain; Region: HrpJ; cl15454 357348014199 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 357348014200 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348014201 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348014202 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 357348014203 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 357348014204 transcriptional regulator InvF; Provisional; Region: PRK15340 357348014205 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348014206 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 357348014207 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 357348014208 Type III secretion needle MxiH like; Region: MxiH; cl09641 357348014209 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 357348014210 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 357348014211 Bacterial type III secretion apparatus protein (OrgA_MxiK); Region: OrgA_MxiK; cl09716 357348014212 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 357348014213 Helix-turn-helix domains; Region: HTH; cl00088 357348014214 DNA binding site [nucleotide binding] 357348014215 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 357348014216 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 357348014217 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 357348014218 active site 357348014219 Zn binding site [ion binding]; other site 357348014220 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 357348014221 Helix-turn-helix domains; Region: HTH; cl00088 357348014222 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 357348014223 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348014224 dimer interface [polypeptide binding]; other site 357348014225 putative metal binding site [ion binding]; other site 357348014226 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 357348014227 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 357348014228 putative substrate translocation pore; other site 357348014229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348014230 Helix-turn-helix domains; Region: HTH; cl00088 357348014231 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 357348014232 dimerization interface [polypeptide binding]; other site 357348014233 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 357348014234 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 357348014235 phosphate binding site [ion binding]; other site 357348014236 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 357348014237 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 357348014238 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 357348014239 peptidase domain interface [polypeptide binding]; other site 357348014240 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 357348014241 active site 357348014242 catalytic triad [active] 357348014243 calcium binding site [ion binding]; other site 357348014244 LysE type translocator; Region: LysE; cl00565 357348014245 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348014246 Helix-turn-helix domains; Region: HTH; cl00088 357348014247 AsnC family; Region: AsnC_trans_reg; pfam01037 357348014248 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 357348014249 putative hydrophobic ligand binding site [chemical binding]; other site 357348014250 Phosphate transporter family; Region: PHO4; cl00396 357348014251 Phosphate transporter family; Region: PHO4; cl00396 357348014252 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 357348014253 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 357348014254 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014255 Autoinducer binding domain; Region: Autoind_bind; pfam03472 357348014256 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 357348014257 DNA binding residues [nucleotide binding] 357348014258 dimerization interface [polypeptide binding]; other site 357348014259 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348014260 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 357348014261 putative active site [active] 357348014262 putative FMN binding site [chemical binding]; other site 357348014263 putative substrate binding site [chemical binding]; other site 357348014264 putative catalytic residue [active] 357348014265 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 357348014266 dimer interface [polypeptide binding]; other site 357348014267 conserved gate region; other site 357348014268 putative PBP binding loops; other site 357348014269 ABC-ATPase subunit interface; other site 357348014270 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 357348014271 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 357348014272 Walker A/P-loop; other site 357348014273 ATP binding site [chemical binding]; other site 357348014274 Q-loop/lid; other site 357348014275 ABC transporter signature motif; other site 357348014276 Walker B; other site 357348014277 D-loop; other site 357348014278 H-loop/switch region; other site 357348014279 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 357348014280 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 357348014281 substrate binding pocket [chemical binding]; other site 357348014282 membrane-bound complex binding site; other site 357348014283 hinge residues; other site 357348014284 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 357348014285 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348014286 active site 357348014287 iron coordination sites [ion binding]; other site 357348014288 substrate binding pocket [chemical binding]; other site 357348014289 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 357348014290 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 357348014291 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 357348014292 DXD motif; other site 357348014293 PilZ domain; Region: PilZ; cl01260 357348014294 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 357348014295 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 357348014296 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 357348014297 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 357348014298 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 357348014299 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 357348014300 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 357348014301 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 357348014302 non-specific DNA binding site [nucleotide binding]; other site 357348014303 salt bridge; other site 357348014304 sequence-specific DNA binding site [nucleotide binding]; other site 357348014305 HipA N-terminal domain; Region: Couple_hipA; cl11853 357348014306 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 357348014307 HipA-like N-terminal domain; Region: HipA_N; pfam07805 357348014308 HipA-like C-terminal domain; Region: HipA_C; pfam07804 357348014309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348014310 Helix-turn-helix domains; Region: HTH; cl00088 357348014311 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 357348014312 dimerization interface [polypeptide binding]; other site 357348014313 Arginase family; Region: Arginase; cl00306 357348014314 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 357348014315 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348014316 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348014317 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 357348014318 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 357348014319 PilM; Region: PilM; pfam07419 357348014320 PilS N terminal; Region: PilS; pfam08805 357348014321 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348014322 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348014323 Type II/IV secretion system protein; Region: T2SE; pfam00437 357348014324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348014325 Walker A motif; other site 357348014326 ATP binding site [chemical binding]; other site 357348014327 Walker B motif; other site 357348014328 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 357348014329 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 357348014330 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 357348014331 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 357348014332 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 357348014333 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348014334 Walker A motif; other site 357348014335 ATP binding site [chemical binding]; other site 357348014336 Walker B motif; other site 357348014337 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 357348014338 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 357348014339 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 357348014340 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 357348014341 active site 357348014342 phosphorylation site [posttranslational modification] 357348014343 intermolecular recognition site; other site 357348014344 dimerization interface [polypeptide binding]; other site 357348014345 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 357348014346 DNA binding site [nucleotide binding] 357348014347 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 357348014348 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 357348014349 ATP binding site [chemical binding]; other site 357348014350 Mg2+ binding site [ion binding]; other site 357348014351 G-X-G motif; other site 357348014352 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 357348014353 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 357348014354 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348014355 Tir chaperone protein (CesT) family; Region: CesT; cl08444 357348014356 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 357348014357 FliP family; Region: FliP; cl00593 357348014358 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 357348014359 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 357348014360 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 357348014361 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 357348014362 FHIPEP family; Region: FHIPEP; pfam00771 357348014363 type III secretion system protein HrcU; Validated; Region: PRK09108 357348014364 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 357348014365 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 357348014366 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 357348014367 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 357348014368 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 357348014369 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 357348014370 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 357348014371 type III secretion system protein HrpB; Validated; Region: PRK09098 357348014372 Flagellar assembly protein FliH; Region: FliH; pfam02108 357348014373 type III secretion system ATPase; Provisional; Region: PRK09099 357348014374 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348014375 Walker A motif; other site 357348014376 ATP binding site [chemical binding]; other site 357348014377 Walker B motif; other site 357348014378 Bacterial type III secretion protein (HrpB7); Region: HrpB7; cl09720 357348014379 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 357348014380 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348014381 peptide synthase; Provisional; Region: PRK12467 357348014382 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014383 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014384 peptide synthase; Provisional; Region: PRK12467 357348014385 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348014386 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014387 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014388 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348014389 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014390 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014391 peptide synthase; Provisional; Region: PRK12467 357348014392 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014393 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014394 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348014395 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014396 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014397 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 357348014398 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 357348014399 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 357348014400 peptide synthase; Provisional; Region: PRK12467 357348014401 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014402 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014403 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348014404 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014405 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014406 peptide synthase; Provisional; Region: PRK12467 357348014407 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014408 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014409 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348014410 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014411 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014412 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 357348014413 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014414 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014415 peptide synthase; Provisional; Region: PRK12467 357348014416 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014417 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014418 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 357348014419 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014420 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014421 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 357348014422 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 357348014423 inhibitor-cofactor binding pocket; inhibition site 357348014424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348014425 catalytic residue [active] 357348014426 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 357348014427 putative substrate translocation pore; other site 357348014428 pyruvate dehydrogenase; Provisional; Region: PRK09124 357348014429 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 357348014430 PYR/PP interface [polypeptide binding]; other site 357348014431 tetramer interface [polypeptide binding]; other site 357348014432 dimer interface [polypeptide binding]; other site 357348014433 TPP binding site [chemical binding]; other site 357348014434 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 357348014435 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 357348014436 TPP-binding site [chemical binding]; other site 357348014437 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 357348014438 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 357348014439 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 357348014440 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 357348014441 putative active site [active] 357348014442 putative catalytic site [active] 357348014443 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 357348014444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348014445 Helix-turn-helix domains; Region: HTH; cl00088 357348014446 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 357348014447 putative dimerization interface [polypeptide binding]; other site 357348014448 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348014449 Helix-turn-helix domains; Region: HTH; cl00088 357348014450 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348014451 putative effector binding pocket; other site 357348014452 dimerization interface [polypeptide binding]; other site 357348014453 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 357348014454 putative substrate translocation pore; other site 357348014455 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 357348014456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 357348014457 sensory histidine kinase AtoS; Provisional; Region: PRK11360 357348014458 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 357348014459 ATP binding site [chemical binding]; other site 357348014460 Mg2+ binding site [ion binding]; other site 357348014461 G-X-G motif; other site 357348014462 Uncharacterized conserved protein [Function unknown]; Region: COG3287 357348014463 FIST N domain; Region: FIST; cl10701 357348014464 FIST C domain; Region: FIST_C; pfam10442 357348014465 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 357348014466 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 357348014467 active site 357348014468 phosphorylation site [posttranslational modification] 357348014469 intermolecular recognition site; other site 357348014470 dimerization interface [polypeptide binding]; other site 357348014471 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 357348014472 Zn2+ binding site [ion binding]; other site 357348014473 Mg2+ binding site [ion binding]; other site 357348014474 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 357348014475 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 357348014476 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; cd00161 357348014477 putative sugar binding sites [chemical binding]; other site 357348014478 Q-X-W motif; other site 357348014479 Galactose oxidase, central domain; Region: Kelch_3; cl02701 357348014480 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 357348014481 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 357348014482 Cu(I) binding site [ion binding]; other site 357348014483 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 357348014484 active site 357348014485 nucleophile elbow; other site 357348014486 benzoate transport; Region: 2A0115; TIGR00895 357348014487 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 357348014488 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 357348014489 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 357348014490 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 357348014491 FMN-binding pocket [chemical binding]; other site 357348014492 flavin binding motif; other site 357348014493 phosphate binding motif [ion binding]; other site 357348014494 beta-alpha-beta structure motif; other site 357348014495 NAD binding pocket [chemical binding]; other site 357348014496 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 357348014497 catalytic loop [active] 357348014498 iron binding site [ion binding]; other site 357348014499 H+ Antiporter protein; Region: 2A0121; TIGR00900 357348014500 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 357348014501 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 357348014502 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 357348014503 Fibronectin type III-like domain; Region: Fn3-like; cl15273 357348014504 Amidase; Region: Amidase; cl11426 357348014505 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 357348014506 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 357348014507 G1 box; other site 357348014508 putative GEF interaction site [polypeptide binding]; other site 357348014509 GTP/Mg2+ binding site [chemical binding]; other site 357348014510 Switch I region; other site 357348014511 G2 box; other site 357348014512 G3 box; other site 357348014513 Switch II region; other site 357348014514 G4 box; other site 357348014515 G5 box; other site 357348014516 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 357348014517 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 357348014518 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 357348014519 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 357348014520 selenocysteine synthase; Provisional; Region: PRK04311 357348014521 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 357348014522 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348014523 catalytic residue [active] 357348014524 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 357348014525 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 357348014526 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 357348014527 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 357348014528 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 357348014529 4Fe-4S binding domain; Region: Fer4; cl02805 357348014530 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 357348014531 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 357348014532 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 357348014533 [4Fe-4S] binding site [ion binding]; other site 357348014534 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 357348014535 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 357348014536 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 357348014537 molybdopterin cofactor binding site; other site 357348014538 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 357348014539 putative active site [active] 357348014540 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 357348014541 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 357348014542 substrate binding pocket [chemical binding]; other site 357348014543 membrane-bound complex binding site; other site 357348014544 hinge residues; other site 357348014545 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 357348014546 dimer interface [polypeptide binding]; other site 357348014547 conserved gate region; other site 357348014548 putative PBP binding loops; other site 357348014549 ABC-ATPase subunit interface; other site 357348014550 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 357348014551 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 357348014552 Walker A/P-loop; other site 357348014553 ATP binding site [chemical binding]; other site 357348014554 Q-loop/lid; other site 357348014555 ABC transporter signature motif; other site 357348014556 Walker B; other site 357348014557 D-loop; other site 357348014558 H-loop/switch region; other site 357348014559 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 357348014560 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 357348014561 active site 357348014562 non-prolyl cis peptide bond; other site 357348014563 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 357348014564 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 357348014565 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 357348014566 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 357348014567 substrate binding pocket [chemical binding]; other site 357348014568 membrane-bound complex binding site; other site 357348014569 hinge residues; other site 357348014570 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348014571 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 357348014572 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 357348014573 putative active site [active] 357348014574 Zn binding site [ion binding]; other site 357348014575 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 357348014576 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348014577 trimer interface [polypeptide binding]; other site 357348014578 eyelet of channel; other site 357348014579 OpgC protein; Region: OpgC_C; cl00792 357348014580 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 357348014581 active site 357348014582 tetramer interface; other site 357348014583 OpgC protein; Region: OpgC_C; cl00792 357348014584 Acyltransferase family; Region: Acyl_transf_3; pfam01757 357348014585 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 357348014586 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 357348014587 putative ADP-binding pocket [chemical binding]; other site 357348014588 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 357348014589 MatE; Region: MatE; cl10513 357348014590 OpgC protein; Region: OpgC_C; cl00792 357348014591 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 357348014592 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 357348014593 NADP-binding site; other site 357348014594 homotetramer interface [polypeptide binding]; other site 357348014595 substrate binding site [chemical binding]; other site 357348014596 homodimer interface [polypeptide binding]; other site 357348014597 active site 357348014598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348014599 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 357348014600 NAD(P) binding site [chemical binding]; other site 357348014601 active site 357348014602 Cupin domain; Region: Cupin_2; cl09118 357348014603 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 357348014604 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 357348014605 homodimer interface [polypeptide binding]; other site 357348014606 substrate-cofactor binding pocket; other site 357348014607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348014608 catalytic residue [active] 357348014609 amidophosphoribosyltransferase; Provisional; Region: PRK09246 357348014610 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 357348014611 active site 357348014612 tetramer interface [polypeptide binding]; other site 357348014613 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 357348014614 active site 357348014615 Colicin V production protein; Region: Colicin_V; cl00567 357348014616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 357348014617 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 357348014618 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 357348014619 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 357348014620 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 357348014621 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 357348014622 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 357348014623 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 357348014624 substrate binding site [chemical binding]; other site 357348014625 active site 357348014626 catalytic residues [active] 357348014627 heterodimer interface [polypeptide binding]; other site 357348014628 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348014629 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 357348014630 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 357348014631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348014632 catalytic residue [active] 357348014633 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 357348014634 active site 357348014635 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 357348014636 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 357348014637 dimerization interface 3.5A [polypeptide binding]; other site 357348014638 active site 357348014639 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 357348014640 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 357348014641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348014642 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 357348014643 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 357348014644 tartrate dehydrogenase; Provisional; Region: PRK08194 357348014645 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 357348014646 substrate binding site [chemical binding]; other site 357348014647 Entericidin EcnA/B family; Region: Entericidin; cl02322 357348014648 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 357348014649 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 357348014650 substrate binding site [chemical binding]; other site 357348014651 ligand binding site [chemical binding]; other site 357348014652 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 357348014653 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 357348014654 active site 357348014655 non-prolyl cis peptide bond; other site 357348014656 cyclase homology domain; Region: CHD; cd07302 357348014657 nucleotidyl binding site; other site 357348014658 metal binding site [ion binding]; metal-binding site 357348014659 dimer interface [polypeptide binding]; other site 357348014660 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 357348014661 Helix-turn-helix domains; Region: HTH; cl00088 357348014662 AsnC family; Region: AsnC_trans_reg; pfam01037 357348014663 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 357348014664 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 357348014665 dimer interface [polypeptide binding]; other site 357348014666 TPP-binding site [chemical binding]; other site 357348014667 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 357348014668 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 357348014669 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 357348014670 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348014671 Cupin domain; Region: Cupin_2; cl09118 357348014672 Helix-turn-helix domain; Region: HTH_18; pfam12833 357348014673 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 357348014674 dimer interface [polypeptide binding]; other site 357348014675 Citrate synthase; Region: Citrate_synt; pfam00285 357348014676 active site 357348014677 citrylCoA binding site [chemical binding]; other site 357348014678 NADH binding [chemical binding]; other site 357348014679 cationic pore residues; other site 357348014680 oxalacetate/citrate binding site [chemical binding]; other site 357348014681 coenzyme A binding site [chemical binding]; other site 357348014682 catalytic triad [active] 357348014683 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 357348014684 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 357348014685 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 357348014686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348014687 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 357348014688 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 357348014689 SdhC subunit interface [polypeptide binding]; other site 357348014690 proximal heme binding site [chemical binding]; other site 357348014691 cardiolipin binding site; other site 357348014692 Iron-sulfur protein interface; other site 357348014693 proximal quinone binding site [chemical binding]; other site 357348014694 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 357348014695 Iron-sulfur protein interface; other site 357348014696 proximal quinone binding site [chemical binding]; other site 357348014697 SdhD (CybS) interface [polypeptide binding]; other site 357348014698 proximal heme binding site [chemical binding]; other site 357348014699 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 357348014700 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348014701 DNA-binding site [nucleotide binding]; DNA binding site 357348014702 UTRA domain; Region: UTRA; cl01230 357348014703 malate dehydrogenase; Provisional; Region: PRK05442 357348014704 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 357348014705 NAD(P) binding site [chemical binding]; other site 357348014706 dimer interface [polypeptide binding]; other site 357348014707 malate binding site [chemical binding]; other site 357348014708 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 357348014709 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 357348014710 aconitate hydratase; Provisional; Region: acnA; PRK12881 357348014711 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 357348014712 substrate binding site [chemical binding]; other site 357348014713 ligand binding site [chemical binding]; other site 357348014714 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 357348014715 substrate binding site [chemical binding]; other site 357348014716 haemagglutination activity domain; Region: Haemagg_act; cl05436 357348014717 Inositol polyphosphate kinase; Region: IPK; cl12283 357348014718 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348014719 Surface antigen; Region: Bac_surface_Ag; cl03097 357348014720 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 357348014721 Cytochrome c; Region: Cytochrom_C; cl11414 357348014722 Cytochrome c [Energy production and conversion]; Region: COG3258 357348014723 Cytochrome c; Region: Cytochrom_C; cl11414 357348014724 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 357348014725 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 357348014726 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 357348014727 peptidase domain interface [polypeptide binding]; other site 357348014728 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 357348014729 active site 357348014730 catalytic triad [active] 357348014731 calcium binding site [ion binding]; other site 357348014732 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 357348014733 putative PBP binding loops; other site 357348014734 dimer interface [polypeptide binding]; other site 357348014735 ABC-ATPase subunit interface; other site 357348014736 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 357348014737 dimer interface [polypeptide binding]; other site 357348014738 conserved gate region; other site 357348014739 putative PBP binding loops; other site 357348014740 ABC-ATPase subunit interface; other site 357348014741 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 357348014742 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 357348014743 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 357348014744 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348014745 Walker A/P-loop; other site 357348014746 ATP binding site [chemical binding]; other site 357348014747 Q-loop/lid; other site 357348014748 ABC transporter signature motif; other site 357348014749 Walker B; other site 357348014750 D-loop; other site 357348014751 H-loop/switch region; other site 357348014752 TOBE domain; Region: TOBE_2; cl01440 357348014753 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 357348014754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348014755 DNA-binding site [nucleotide binding]; DNA binding site 357348014756 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 357348014757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348014758 homodimer interface [polypeptide binding]; other site 357348014759 catalytic residue [active] 357348014760 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 357348014761 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 357348014762 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 357348014763 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 357348014764 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 357348014765 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 357348014766 N-terminal plug; other site 357348014767 ligand-binding site [chemical binding]; other site 357348014768 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 357348014769 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 357348014770 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 357348014771 Peptidase family M23; Region: Peptidase_M23; pfam01551 357348014772 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 357348014773 E3 interaction surface; other site 357348014774 lipoyl attachment site [posttranslational modification]; other site 357348014775 Cupin domain; Region: Cupin_2; cl09118 357348014776 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 357348014777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348014778 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 357348014779 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 357348014780 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348014781 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 357348014782 NAD+ binding site [chemical binding]; other site 357348014783 substrate binding site [chemical binding]; other site 357348014784 Zn binding site [ion binding]; other site 357348014785 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 357348014786 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 357348014787 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348014788 Methyltransferase domain; Region: Methyltransf_31; pfam13847 357348014789 OpgC protein; Region: OpgC_C; cl00792 357348014790 Acyltransferase family; Region: Acyl_transf_3; pfam01757 357348014791 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 357348014792 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 357348014793 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 357348014794 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 357348014795 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348014796 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 357348014797 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 357348014798 DNA binding residues [nucleotide binding] 357348014799 DNA primase; Validated; Region: dnaG; PRK05667 357348014800 CHC2 zinc finger; Region: zf-CHC2; cl15369 357348014801 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 357348014802 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 357348014803 active site 357348014804 metal binding site [ion binding]; metal-binding site 357348014805 interdomain interaction site; other site 357348014806 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 357348014807 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 357348014808 GatB domain; Region: GatB_Yqey; cl11497 357348014809 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 357348014810 HI0933-like protein; Region: HI0933_like; pfam03486 357348014811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348014812 UGMP family protein; Validated; Region: PRK09604 357348014813 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 357348014814 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 357348014815 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 357348014816 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 357348014817 TPP-binding site; other site 357348014818 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 357348014819 PYR/PP interface [polypeptide binding]; other site 357348014820 dimer interface [polypeptide binding]; other site 357348014821 TPP binding site [chemical binding]; other site 357348014822 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 357348014823 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 357348014824 substrate binding pocket [chemical binding]; other site 357348014825 chain length determination region; other site 357348014826 substrate-Mg2+ binding site; other site 357348014827 catalytic residues [active] 357348014828 aspartate-rich region 1; other site 357348014829 active site lid residues [active] 357348014830 aspartate-rich region 2; other site 357348014831 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 357348014832 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 357348014833 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 357348014834 [2Fe-2S] cluster binding site [ion binding]; other site 357348014835 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 357348014836 alpha subunit interface [polypeptide binding]; other site 357348014837 active site 357348014838 substrate binding site [chemical binding]; other site 357348014839 Fe binding site [ion binding]; other site 357348014840 Transposase domain (DUF772); Region: DUF772; pfam05598 357348014841 DDE superfamily endonuclease; Region: DDE_4; cl15789 357348014842 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 357348014843 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 357348014844 active site residue [active] 357348014845 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 357348014846 active site residue [active] 357348014847 Dienelactone hydrolase family; Region: DLH; pfam01738 357348014848 Predicted membrane protein [Function unknown]; Region: COG4655 357348014849 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 357348014850 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 357348014851 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348014852 DNA polymerase I; Provisional; Region: PRK05755 357348014853 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 357348014854 active site 357348014855 metal binding site 1 [ion binding]; metal-binding site 357348014856 putative 5' ssDNA interaction site; other site 357348014857 metal binding site 3; metal-binding site 357348014858 metal binding site 2 [ion binding]; metal-binding site 357348014859 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 357348014860 putative DNA binding site [nucleotide binding]; other site 357348014861 putative metal binding site [ion binding]; other site 357348014862 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 357348014863 active site 357348014864 catalytic site [active] 357348014865 substrate binding site [chemical binding]; other site 357348014866 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 357348014867 active site 357348014868 DNA binding site [nucleotide binding] 357348014869 catalytic site [active] 357348014870 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 357348014871 Protein of unknown function (DUF523); Region: DUF523; cl00733 357348014872 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 357348014873 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 357348014874 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 357348014875 active site 357348014876 Int/Topo IB signature motif; other site 357348014877 DNA binding site [nucleotide binding] 357348014878 AMP nucleosidase; Provisional; Region: PRK08292 357348014879 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 357348014880 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 357348014881 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 357348014882 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 357348014883 putative active site [active] 357348014884 putative substrate binding site [chemical binding]; other site 357348014885 ATP binding site [chemical binding]; other site 357348014886 Helix-turn-helix domains; Region: HTH; cl00088 357348014887 OsmC-like protein; Region: OsmC; cl00767 357348014888 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 357348014889 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 357348014890 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 357348014891 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 357348014892 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 357348014893 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 357348014894 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 357348014895 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348014896 Walker A/P-loop; other site 357348014897 ATP binding site [chemical binding]; other site 357348014898 Q-loop/lid; other site 357348014899 ABC transporter signature motif; other site 357348014900 Walker B; other site 357348014901 D-loop; other site 357348014902 H-loop/switch region; other site 357348014903 Helix-turn-helix domains; Region: HTH; cl00088 357348014904 TOBE domain; Region: TOBE_2; cl01440 357348014905 TOBE domain; Region: TOBE_2; cl01440 357348014906 CHAD domain; Region: CHAD; cl10506 357348014907 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 357348014908 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 357348014909 dimer interface [polypeptide binding]; other site 357348014910 hexamer interface [polypeptide binding]; other site 357348014911 active site 2 [active] 357348014912 Helix-turn-helix domains; Region: HTH; cl00088 357348014913 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 357348014914 dimerization interface [polypeptide binding]; other site 357348014915 EamA-like transporter family; Region: EamA; cl01037 357348014916 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 357348014917 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 357348014918 dimer interface [polypeptide binding]; other site 357348014919 phosphorylation site [posttranslational modification] 357348014920 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 357348014921 Domain of unknown function DUF21; Region: DUF21; pfam01595 357348014922 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 357348014923 Transporter associated domain; Region: CorC_HlyC; cl08393 357348014924 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 357348014925 thiamine phosphate binding site [chemical binding]; other site 357348014926 active site 357348014927 pyrophosphate binding site [ion binding]; other site 357348014928 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 357348014929 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 357348014930 active site 357348014931 catalytic site [active] 357348014932 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 357348014933 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 357348014934 S-adenosylmethionine binding site [chemical binding]; other site 357348014935 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 357348014936 DNA binding residues [nucleotide binding] 357348014937 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 357348014938 putative deacylase active site [active] 357348014939 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 357348014940 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 357348014941 phosphate binding site [ion binding]; other site 357348014942 Helix-turn-helix domains; Region: HTH; cl00088 357348014943 Winged helix-turn helix; Region: HTH_29; pfam13551 357348014944 Winged helix-turn helix; Region: HTH_33; pfam13592 357348014945 LysE type translocator; Region: LysE; cl00565 357348014946 Cupin domain; Region: Cupin_2; cl09118 357348014947 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348014948 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348014949 Autoinducer binding domain; Region: Autoind_bind; pfam03472 357348014950 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 357348014951 LysE type translocator; Region: LysE; cl00565 357348014952 Cupin domain; Region: Cupin_2; cl09118 357348014953 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 357348014954 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 357348014955 active site 357348014956 catalytic residues [active] 357348014957 metal binding site [ion binding]; metal-binding site 357348014958 DmpG-like communication domain; Region: DmpG_comm; pfam07836 357348014959 acetaldehyde dehydrogenase; Validated; Region: PRK08300 357348014960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348014961 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 357348014962 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 357348014963 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 357348014964 homodimer interface [polypeptide binding]; other site 357348014965 substrate-cofactor binding pocket; other site 357348014966 catalytic residue [active] 357348014967 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 357348014968 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 357348014969 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 357348014970 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348014971 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 357348014972 AMP-binding enzyme; Region: AMP-binding; cl15778 357348014973 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 357348014974 dimerization interface [polypeptide binding]; other site 357348014975 putative DNA binding site [nucleotide binding]; other site 357348014976 putative Zn2+ binding site [ion binding]; other site 357348014977 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 357348014978 putative hydrophobic ligand binding site [chemical binding]; other site 357348014979 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 357348014980 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 357348014981 active site 357348014982 metal binding site [ion binding]; metal-binding site 357348014983 RES domain; Region: RES; cl02411 357348014984 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 357348014985 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 357348014986 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 357348014987 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 357348014988 Cupin domain; Region: Cupin_2; cl09118 357348014989 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348014990 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348014991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348014992 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 357348014993 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 357348014994 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 357348014995 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 357348014996 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 357348014997 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 357348014998 active site 357348014999 tyrosine kinase; Provisional; Region: PRK11519 357348015000 Chain length determinant protein; Region: Wzz; cl15801 357348015001 Chain length determinant protein; Region: Wzz; cl15801 357348015002 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 357348015003 polysaccharide export protein Wza; Provisional; Region: PRK15078 357348015004 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 357348015005 SLBB domain; Region: SLBB; pfam10531 357348015006 Low molecular weight phosphatase family; Region: LMWPc; cl00105 357348015007 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 357348015008 active site 357348015009 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 357348015010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015011 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 357348015012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015013 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 357348015014 Bacterial sugar transferase; Region: Bac_transf; cl00939 357348015015 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 357348015016 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 357348015017 Substrate binding site; other site 357348015018 Cupin domain; Region: Cupin_2; cl09118 357348015019 DDE superfamily endonuclease; Region: DDE_4; cl15789 357348015020 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 357348015021 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 357348015022 Cysteine-rich domain; Region: CCG; pfam02754 357348015023 Cysteine-rich domain; Region: CCG; pfam02754 357348015024 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 357348015025 binuclear metal center [ion binding]; other site 357348015026 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 357348015027 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 357348015028 amidase catalytic site [active] 357348015029 Zn binding residues [ion binding]; other site 357348015030 substrate binding site [chemical binding]; other site 357348015031 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 357348015032 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 357348015033 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 357348015034 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 357348015035 putative hydrophobic ligand binding site [chemical binding]; other site 357348015036 YCII-related domain; Region: YCII; cl00999 357348015037 YCII-related domain; Region: YCII; cl00999 357348015038 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 357348015039 generic binding surface I; other site 357348015040 generic binding surface II; other site 357348015041 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 357348015042 putative active site [active] 357348015043 putative catalytic site [active] 357348015044 putative Mg binding site IVb [ion binding]; other site 357348015045 putative phosphate binding site [ion binding]; other site 357348015046 putative DNA binding site [nucleotide binding]; other site 357348015047 putative Mg binding site IVa [ion binding]; other site 357348015048 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 357348015049 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 357348015050 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 357348015051 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 357348015052 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 357348015053 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 357348015054 N-terminal plug; other site 357348015055 ligand-binding site [chemical binding]; other site 357348015056 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 357348015057 putative substrate translocation pore; other site 357348015058 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 357348015059 Prostaglandin dehydrogenases; Region: PGDH; cd05288 357348015060 NAD(P) binding site [chemical binding]; other site 357348015061 substrate binding site [chemical binding]; other site 357348015062 dimer interface [polypeptide binding]; other site 357348015063 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015064 short chain dehydrogenase; Validated; Region: PRK07069 357348015065 NAD(P) binding site [chemical binding]; other site 357348015066 active site 357348015067 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 357348015068 classical (c) SDRs; Region: SDR_c; cd05233 357348015069 NAD(P) binding site [chemical binding]; other site 357348015070 active site 357348015071 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 357348015072 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 357348015073 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 357348015074 putative active site [active] 357348015075 putative substrate binding site [chemical binding]; other site 357348015076 ATP binding site [chemical binding]; other site 357348015077 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348015078 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348015079 active site 357348015080 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348015081 Helix-turn-helix domains; Region: HTH; cl00088 357348015082 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 357348015083 substrate binding pocket [chemical binding]; other site 357348015084 dimerization interface [polypeptide binding]; other site 357348015085 OsmC-like protein; Region: OsmC; cl00767 357348015086 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 357348015087 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 357348015088 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 357348015089 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 357348015090 Walker A/P-loop; other site 357348015091 ATP binding site [chemical binding]; other site 357348015092 Q-loop/lid; other site 357348015093 ABC transporter signature motif; other site 357348015094 Walker B; other site 357348015095 D-loop; other site 357348015096 H-loop/switch region; other site 357348015097 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 357348015098 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 357348015099 conserved cys residue [active] 357348015100 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 357348015101 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 357348015102 conserved cys residue [active] 357348015103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348015104 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 357348015105 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 357348015106 active site 357348015107 HIGH motif; other site 357348015108 dimer interface [polypeptide binding]; other site 357348015109 KMSKS motif; other site 357348015110 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 357348015111 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348015112 CAAX protease self-immunity; Region: Abi; cl00558 357348015113 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 357348015114 Cl- selectivity filter; other site 357348015115 Cl- binding residues [ion binding]; other site 357348015116 pore gating glutamate residue; other site 357348015117 dimer interface [polypeptide binding]; other site 357348015118 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 357348015119 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348015120 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 357348015121 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 357348015122 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 357348015123 active site 357348015124 phosphorylation site [posttranslational modification] 357348015125 intermolecular recognition site; other site 357348015126 dimerization interface [polypeptide binding]; other site 357348015127 CheB methylesterase; Region: CheB_methylest; pfam01339 357348015128 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 357348015129 putative binding surface; other site 357348015130 active site 357348015131 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 357348015132 ATP binding site [chemical binding]; other site 357348015133 Mg2+ binding site [ion binding]; other site 357348015134 G-X-G motif; other site 357348015135 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 357348015136 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 357348015137 Response regulator receiver domain; Region: Response_reg; pfam00072 357348015138 active site 357348015139 phosphorylation site [posttranslational modification] 357348015140 intermolecular recognition site; other site 357348015141 dimerization interface [polypeptide binding]; other site 357348015142 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 357348015143 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 357348015144 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348015145 TPR repeat; Region: TPR_11; pfam13414 357348015146 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 357348015147 binding surface 357348015148 TPR motif; other site 357348015149 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 357348015150 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 357348015151 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 357348015152 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348015153 dimer interface [polypeptide binding]; other site 357348015154 putative CheW interface [polypeptide binding]; other site 357348015155 Response regulator receiver domain; Region: Response_reg; pfam00072 357348015156 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 357348015157 active site 357348015158 phosphorylation site [posttranslational modification] 357348015159 intermolecular recognition site; other site 357348015160 dimerization interface [polypeptide binding]; other site 357348015161 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 357348015162 dimer interface [polypeptide binding]; other site 357348015163 phosphorylation site [posttranslational modification] 357348015164 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 357348015165 ATP binding site [chemical binding]; other site 357348015166 Mg2+ binding site [ion binding]; other site 357348015167 G-X-G motif; other site 357348015168 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 357348015169 active site 357348015170 catalytic site [active] 357348015171 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 357348015172 NAD(P) binding site [chemical binding]; other site 357348015173 catalytic residues [active] 357348015174 acetolactate synthase; Reviewed; Region: PRK08322 357348015175 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 357348015176 PYR/PP interface [polypeptide binding]; other site 357348015177 dimer interface [polypeptide binding]; other site 357348015178 TPP binding site [chemical binding]; other site 357348015179 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 357348015180 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 357348015181 TPP-binding site [chemical binding]; other site 357348015182 dimer interface [polypeptide binding]; other site 357348015183 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 357348015184 Protein of unknown function (DUF445); Region: DUF445; pfam04286 357348015185 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 357348015186 PLD-like domain; Region: PLDc_2; pfam13091 357348015187 putative active site [active] 357348015188 catalytic site [active] 357348015189 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 357348015190 PLD-like domain; Region: PLDc_2; pfam13091 357348015191 putative active site [active] 357348015192 catalytic site [active] 357348015193 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 357348015194 HIT family signature motif; other site 357348015195 catalytic residue [active] 357348015196 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 357348015197 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348015198 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 357348015199 [2Fe-2S] cluster binding site [ion binding]; other site 357348015200 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 357348015201 inter-subunit interface; other site 357348015202 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 357348015203 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 357348015204 putative alpha subunit interface [polypeptide binding]; other site 357348015205 putative active site [active] 357348015206 putative substrate binding site [chemical binding]; other site 357348015207 Fe binding site [ion binding]; other site 357348015208 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 357348015209 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 357348015210 Helix-turn-helix domains; Region: HTH; cl00088 357348015211 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 357348015212 dimerization interface [polypeptide binding]; other site 357348015213 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 357348015214 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 357348015215 octamer interface [polypeptide binding]; other site 357348015216 active site 357348015217 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 357348015218 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 357348015219 dimer interface [polypeptide binding]; other site 357348015220 active site 357348015221 Muconolactone delta-isomerase; Region: MIase; cl01992 357348015222 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 357348015223 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 357348015224 Subunit I/III interface [polypeptide binding]; other site 357348015225 Subunit III/IV interface [polypeptide binding]; other site 357348015226 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 357348015227 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 357348015228 D-pathway; other site 357348015229 Putative ubiquinol binding site [chemical binding]; other site 357348015230 Low-spin heme (heme b) binding site [chemical binding]; other site 357348015231 Putative water exit pathway; other site 357348015232 Binuclear center (heme o3/CuB) [ion binding]; other site 357348015233 K-pathway; other site 357348015234 Putative proton exit pathway; other site 357348015235 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 357348015236 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348015237 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 357348015238 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 357348015239 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 357348015240 active site 357348015241 FMN binding site [chemical binding]; other site 357348015242 2,4-decadienoyl-CoA binding site; other site 357348015243 catalytic residue [active] 357348015244 4Fe-4S cluster binding site [ion binding]; other site 357348015245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015246 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 357348015247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 357348015248 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348015249 Helix-turn-helix domains; Region: HTH; cl00088 357348015250 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 357348015251 dimerization interface [polypeptide binding]; other site 357348015252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015253 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 357348015254 NAD(P) binding site [chemical binding]; other site 357348015255 active site 357348015256 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 357348015257 Helix-turn-helix domains; Region: HTH; cl00088 357348015258 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 357348015259 dimerizarion interface [polypeptide binding]; other site 357348015260 CrgA pocket; other site 357348015261 substrate binding pocket [chemical binding]; other site 357348015262 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 357348015263 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 357348015264 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 357348015265 putative alpha subunit interface [polypeptide binding]; other site 357348015266 putative active site [active] 357348015267 putative substrate binding site [chemical binding]; other site 357348015268 Fe binding site [ion binding]; other site 357348015269 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 357348015270 inter-subunit interface; other site 357348015271 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 357348015272 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 357348015273 catalytic loop [active] 357348015274 iron binding site [ion binding]; other site 357348015275 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 357348015276 FAD binding pocket [chemical binding]; other site 357348015277 FAD binding motif [chemical binding]; other site 357348015278 phosphate binding motif [ion binding]; other site 357348015279 beta-alpha-beta structure motif; other site 357348015280 NAD binding pocket [chemical binding]; other site 357348015281 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 357348015282 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 357348015283 putative NAD(P) binding site [chemical binding]; other site 357348015284 active site 357348015285 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 357348015286 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 357348015287 substrate binding pocket [chemical binding]; other site 357348015288 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 357348015289 Isochorismatase family; Region: Isochorismatase; pfam00857 357348015290 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 357348015291 catalytic triad [active] 357348015292 conserved cis-peptide bond; other site 357348015293 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 357348015294 BNR repeat-like domain; Region: BNR_2; pfam13088 357348015295 Asp-box motif; other site 357348015296 lysine transporter; Provisional; Region: PRK10836 357348015297 Spore germination protein; Region: Spore_permease; cl15802 357348015298 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 357348015299 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 357348015300 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 357348015301 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348015302 Beta-Casp domain; Region: Beta-Casp; cl12567 357348015303 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 357348015304 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 357348015305 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 357348015306 NAD(P) binding site [chemical binding]; other site 357348015307 homotetramer interface [polypeptide binding]; other site 357348015308 homodimer interface [polypeptide binding]; other site 357348015309 active site 357348015310 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 357348015311 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 357348015312 ligand binding site [chemical binding]; other site 357348015313 flexible hinge region; other site 357348015314 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 357348015315 putative switch regulator; other site 357348015316 non-specific DNA interactions [nucleotide binding]; other site 357348015317 DNA binding site [nucleotide binding] 357348015318 sequence specific DNA binding site [nucleotide binding]; other site 357348015319 putative cAMP binding site [chemical binding]; other site 357348015320 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 357348015321 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 357348015322 putative NAD(P) binding site [chemical binding]; other site 357348015323 putative substrate binding site [chemical binding]; other site 357348015324 catalytic Zn binding site [ion binding]; other site 357348015325 structural Zn binding site [ion binding]; other site 357348015326 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 357348015327 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 357348015328 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 357348015329 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 357348015330 BON domain; Region: BON; cl02771 357348015331 BON domain; Region: BON; cl02771 357348015332 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 357348015333 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 357348015334 ligand-binding site [chemical binding]; other site 357348015335 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 357348015336 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 357348015337 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348015338 dimer interface [polypeptide binding]; other site 357348015339 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 357348015340 putative CheW interface [polypeptide binding]; other site 357348015341 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 357348015342 putative active site [active] 357348015343 putative metal binding site [ion binding]; other site 357348015344 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 357348015345 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 357348015346 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 357348015347 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 357348015348 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 357348015349 Walker A/P-loop; other site 357348015350 ATP binding site [chemical binding]; other site 357348015351 Q-loop/lid; other site 357348015352 ABC transporter signature motif; other site 357348015353 Walker B; other site 357348015354 D-loop; other site 357348015355 H-loop/switch region; other site 357348015356 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 357348015357 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 357348015358 FtsX-like permease family; Region: FtsX; cl15850 357348015359 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 357348015360 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 357348015361 Ligand Binding Site [chemical binding]; other site 357348015362 Helix-turn-helix domains; Region: HTH; cl00088 357348015363 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 357348015364 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 357348015365 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 357348015366 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 357348015367 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 357348015368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348015369 Walker A/P-loop; other site 357348015370 ATP binding site [chemical binding]; other site 357348015371 Q-loop/lid; other site 357348015372 ABC transporter signature motif; other site 357348015373 Walker B; other site 357348015374 D-loop; other site 357348015375 H-loop/switch region; other site 357348015376 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348015377 Walker A/P-loop; other site 357348015378 ATP binding site [chemical binding]; other site 357348015379 Q-loop/lid; other site 357348015380 ABC transporter signature motif; other site 357348015381 Walker B; other site 357348015382 D-loop; other site 357348015383 H-loop/switch region; other site 357348015384 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 357348015385 ABC-2 type transporter; Region: ABC2_membrane; cl11417 357348015386 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 357348015387 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 357348015388 ABC-2 type transporter; Region: ABC2_membrane; cl11417 357348015389 PAS fold; Region: PAS_4; pfam08448 357348015390 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 357348015391 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 357348015392 dimer interface [polypeptide binding]; other site 357348015393 phosphorylation site [posttranslational modification] 357348015394 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 357348015395 ATP binding site [chemical binding]; other site 357348015396 Mg2+ binding site [ion binding]; other site 357348015397 G-X-G motif; other site 357348015398 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 357348015399 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 357348015400 active site 357348015401 phosphorylation site [posttranslational modification] 357348015402 intermolecular recognition site; other site 357348015403 dimerization interface [polypeptide binding]; other site 357348015404 Cache domain; Region: Cache_2; cl07034 357348015405 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 357348015406 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 357348015407 dimer interface [polypeptide binding]; other site 357348015408 putative CheW interface [polypeptide binding]; other site 357348015409 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 357348015410 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 357348015411 NAD binding site [chemical binding]; other site 357348015412 substrate binding site [chemical binding]; other site 357348015413 catalytic Zn binding site [ion binding]; other site 357348015414 tetramer interface [polypeptide binding]; other site 357348015415 structural Zn binding site [ion binding]; other site 357348015416 ATP synthase; Region: ATP-synt; cl00365 357348015417 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 357348015418 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 357348015419 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348015420 Walker A motif; other site 357348015421 ATP binding site [chemical binding]; other site 357348015422 Walker B motif; other site 357348015423 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 357348015424 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 357348015425 ATP synthase subunit C; Region: ATP-synt_C; cl00466 357348015426 ATP synthase A chain; Region: ATP-synt_A; cl00413 357348015427 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 357348015428 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 357348015429 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 357348015430 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 357348015431 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 357348015432 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 357348015433 alpha subunit interaction interface [polypeptide binding]; other site 357348015434 Walker A motif; other site 357348015435 ATP binding site [chemical binding]; other site 357348015436 Walker B motif; other site 357348015437 inhibitor binding site; inhibition site 357348015438 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 357348015439 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 357348015440 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 357348015441 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 357348015442 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 357348015443 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 357348015444 dimer interaction site [polypeptide binding]; other site 357348015445 substrate-binding tunnel; other site 357348015446 active site 357348015447 catalytic site [active] 357348015448 substrate binding site [chemical binding]; other site 357348015449 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 357348015450 Acetokinase family; Region: Acetate_kinase; cl01029 357348015451 acetate kinase; Region: ackA; TIGR00016 357348015452 6-phosphofructokinase 2; Provisional; Region: PRK10294 357348015453 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 357348015454 putative substrate binding site [chemical binding]; other site 357348015455 putative ATP binding site [chemical binding]; other site 357348015456 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 357348015457 BON domain; Region: BON; cl02771 357348015458 BON domain; Region: BON; cl02771 357348015459 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 357348015460 active site 357348015461 catalytic motif [active] 357348015462 Zn binding site [ion binding]; other site 357348015463 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 357348015464 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 357348015465 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 357348015466 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 357348015467 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 357348015468 catalytic residue [active] 357348015469 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 357348015470 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 357348015471 Nucleoside recognition; Region: Gate; cl00486 357348015472 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 357348015473 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 357348015474 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 357348015475 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 357348015476 putative C-terminal domain interface [polypeptide binding]; other site 357348015477 putative GSH binding site (G-site) [chemical binding]; other site 357348015478 putative dimer interface [polypeptide binding]; other site 357348015479 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 357348015480 putative N-terminal domain interface [polypeptide binding]; other site 357348015481 putative dimer interface [polypeptide binding]; other site 357348015482 putative substrate binding pocket (H-site) [chemical binding]; other site 357348015483 LysR family transcriptional regulator; Provisional; Region: PRK14997 357348015484 Helix-turn-helix domains; Region: HTH; cl00088 357348015485 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 357348015486 putative effector binding pocket; other site 357348015487 dimerization interface [polypeptide binding]; other site 357348015488 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348015489 short chain dehydrogenase; Provisional; Region: PRK06181 357348015490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015491 NAD(P) binding site [chemical binding]; other site 357348015492 active site 357348015493 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 357348015494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015495 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 357348015496 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348015497 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 357348015498 metal binding site [ion binding]; metal-binding site 357348015499 active site 357348015500 I-site; other site 357348015501 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 357348015502 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 357348015503 peptidase domain interface [polypeptide binding]; other site 357348015504 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 357348015505 active site 357348015506 catalytic triad [active] 357348015507 calcium binding site [ion binding]; other site 357348015508 Phospholipid methyltransferase; Region: PEMT; cl00763 357348015509 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 357348015510 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 357348015511 Chain length determinant protein; Region: Wzz; cl15801 357348015512 Chain length determinant protein; Region: Wzz; cl15801 357348015513 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 357348015514 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 357348015515 putative metal binding site [ion binding]; other site 357348015516 putative homodimer interface [polypeptide binding]; other site 357348015517 putative homotetramer interface [polypeptide binding]; other site 357348015518 putative homodimer-homodimer interface [polypeptide binding]; other site 357348015519 putative allosteric switch controlling residues; other site 357348015520 Cation efflux family; Region: Cation_efflux; cl00316 357348015521 Cation efflux family; Region: Cation_efflux; cl00316 357348015522 Catalytic domain, repeat 1, of Deoxyribonuclease II and similar proteins; Region: PLDc_DNaseII_1; cd09120 357348015523 Deoxyribonuclease II; Region: DNase_II; pfam03265 357348015524 putative active site [active] 357348015525 catalytic site [active] 357348015526 Catalytic domain, repeat 2, of Deoxyribonuclease II and similar proteins; Region: PLDc_DNaseII_2; cd09121 357348015527 putative active site [active] 357348015528 catalytic site [active] 357348015529 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 357348015530 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 357348015531 active site 357348015532 metal binding site [ion binding]; metal-binding site 357348015533 Ferritin-like; Region: Ferritin-like; pfam12902 357348015534 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 357348015535 intersubunit interface [polypeptide binding]; other site 357348015536 active site 357348015537 Zn2+ binding site [ion binding]; other site 357348015538 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 357348015539 putative uracil binding site [chemical binding]; other site 357348015540 putative active site [active] 357348015541 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 357348015542 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 357348015543 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 357348015544 active site 357348015545 catalytic triad [active] 357348015546 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 357348015547 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 357348015548 active site 357348015549 phosphorylation site [posttranslational modification] 357348015550 intermolecular recognition site; other site 357348015551 dimerization interface [polypeptide binding]; other site 357348015552 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 357348015553 DNA binding site [nucleotide binding] 357348015554 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 357348015555 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 357348015556 dimerization interface [polypeptide binding]; other site 357348015557 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 357348015558 dimer interface [polypeptide binding]; other site 357348015559 phosphorylation site [posttranslational modification] 357348015560 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 357348015561 ATP binding site [chemical binding]; other site 357348015562 Mg2+ binding site [ion binding]; other site 357348015563 G-X-G motif; other site 357348015564 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 357348015565 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348015566 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 357348015567 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 357348015568 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 357348015569 Phosphoesterase family; Region: Phosphoesterase; cl15450 357348015570 Iron permease FTR1 family; Region: FTR1; cl00475 357348015571 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 357348015572 CTP synthase; Region: PyrG; TIGR00337 357348015573 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 357348015574 substrate binding pocket [chemical binding]; other site 357348015575 membrane-bound complex binding site; other site 357348015576 hinge residues; other site 357348015577 Protein of unknown function, DUF; Region: DUF411; cl01142 357348015578 Helix-turn-helix domains; Region: HTH; cl00088 357348015579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015580 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 357348015581 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 357348015582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015583 This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit of aminopyrrolnitrin oxygenase (PrnD). PrnD is a novel Rieske N-oxygenase that catalyzes the final step in the pyrrolnitrin biosynthetic pathway, the oxidation...; Region: Rieske_RO_Alpha_PrnD; cd03537 357348015584 Transposase, Mutator family; Region: Transposase_mut; pfam00872 357348015585 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 357348015586 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 357348015587 glutaminase active site [active] 357348015588 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 357348015589 dimer interface [polypeptide binding]; other site 357348015590 active site 357348015591 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 357348015592 dimer interface [polypeptide binding]; other site 357348015593 active site 357348015594 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 357348015595 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 357348015596 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 357348015597 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 357348015598 DXD motif; other site 357348015599 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 357348015600 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 357348015601 active site 357348015602 homodimer interface [polypeptide binding]; other site 357348015603 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 357348015604 Helix-turn-helix domains; Region: HTH; cl00088 357348015605 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 357348015606 dimerization interface [polypeptide binding]; other site 357348015607 Integral membrane protein TerC family; Region: TerC; cl10468 357348015608 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 357348015609 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 357348015610 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 357348015611 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 357348015612 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348015613 catalytic residue [active] 357348015614 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; cd00028 357348015615 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 357348015616 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 357348015617 NAD binding site [chemical binding]; other site 357348015618 catalytic Zn binding site [ion binding]; other site 357348015619 structural Zn binding site [ion binding]; other site 357348015620 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 357348015621 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 357348015622 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348015623 catalytic residue [active] 357348015624 uncharacterized xylulose kinase-like proteins, subgroup 2; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 357348015625 N- and C-terminal domain interface [polypeptide binding]; other site 357348015626 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 357348015627 active site 357348015628 catalytic site [active] 357348015629 metal binding site [ion binding]; metal-binding site 357348015630 xylulose binding site [chemical binding]; other site 357348015631 ATP binding site [chemical binding]; other site 357348015632 putative homodimer interface [polypeptide binding]; other site 357348015633 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 357348015634 Helix-turn-helix domains; Region: HTH; cl00088 357348015635 Transposase domain (DUF772); Region: DUF772; pfam05598 357348015636 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 357348015637 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348015638 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348015639 active site 357348015640 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 357348015641 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 357348015642 NAD(P) binding site [chemical binding]; other site 357348015643 substrate binding site [chemical binding]; other site 357348015644 homotetramer interface [polypeptide binding]; other site 357348015645 active site 357348015646 homodimer interface [polypeptide binding]; other site 357348015647 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 357348015648 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 357348015649 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 357348015650 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 357348015651 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 357348015652 active site 357348015653 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 357348015654 enoyl-CoA hydratase; Provisional; Region: PRK07468 357348015655 substrate binding site [chemical binding]; other site 357348015656 oxyanion hole (OAH) forming residues; other site 357348015657 trimer interface [polypeptide binding]; other site 357348015658 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 357348015659 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 357348015660 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348015661 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 357348015662 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 357348015663 carboxyltransferase (CT) interaction site; other site 357348015664 biotinylation site [posttranslational modification]; other site 357348015665 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 357348015666 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 357348015667 AMP-binding enzyme; Region: AMP-binding; cl15778 357348015668 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 357348015669 Fatty acid desaturase; Region: FA_desaturase; pfam00487 357348015670 Di-iron ligands [ion binding]; other site 357348015671 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 357348015672 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348015673 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 357348015674 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 357348015675 S-adenosylmethionine binding site [chemical binding]; other site 357348015676 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 357348015677 Fatty acid desaturase; Region: FA_desaturase; pfam00487 357348015678 Di-iron ligands [ion binding]; other site 357348015679 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 357348015680 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 357348015681 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 357348015682 acyl-CoA synthetase; Validated; Region: PRK05850 357348015683 AMP-binding enzyme; Region: AMP-binding; cl15778 357348015684 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348015685 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 357348015686 CoenzymeA binding site [chemical binding]; other site 357348015687 subunit interaction site [polypeptide binding]; other site 357348015688 PHB binding site; other site 357348015689 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348015690 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 357348015691 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 357348015692 dimer interface [polypeptide binding]; other site 357348015693 ADP-ribose binding site [chemical binding]; other site 357348015694 active site 357348015695 nudix motif; other site 357348015696 metal binding site [ion binding]; metal-binding site 357348015697 DDE domain; Region: DDE_Tnp_IS240; pfam13610 357348015698 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 357348015699 putative transposase OrfB; Reviewed; Region: PHA02517 357348015700 HTH-like domain; Region: HTH_21; pfam13276 357348015701 Integrase core domain; Region: rve; cl01316 357348015702 Integrase core domain; Region: rve_3; cl15866 357348015703 Helix-turn-helix domains; Region: HTH; cl00088 357348015704 Domain of Unknown Function (DUF746); Region: DUF746; pfam05344 357348015705 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 357348015706 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 357348015707 Surface antigen; Region: Bac_surface_Ag; cl03097 357348015708 haemagglutination activity domain; Region: Haemagg_act; cl05436 357348015709 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 357348015710 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 357348015711 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 357348015712 RHS Repeat; Region: RHS_repeat; cl11982 357348015713 RHS Repeat; Region: RHS_repeat; cl11982 357348015714 RHS Repeat; Region: RHS_repeat; cl11982 357348015715 RHS Repeat; Region: RHS_repeat; cl11982 357348015716 RHS Repeat; Region: RHS_repeat; cl11982 357348015717 RHS Repeat; Region: RHS_repeat; cl11982 357348015718 RHS Repeat; Region: RHS_repeat; cl11982 357348015719 RHS Repeat; Region: RHS_repeat; cl11982 357348015720 RHS Repeat; Region: RHS_repeat; cl11982 357348015721 RHS Repeat; Region: RHS_repeat; cl11982 357348015722 RHS protein; Region: RHS; pfam03527 357348015723 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 357348015724 SCP1.201-like deaminase; Region: SCP1201-deam; pfam14428 357348015725 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 357348015726 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348015727 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348015728 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 357348015729 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 357348015730 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 357348015731 Helix-turn-helix domains; Region: HTH; cl00088 357348015732 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 357348015733 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 357348015734 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 357348015735 dimer interface [polypeptide binding]; other site 357348015736 conserved gate region; other site 357348015737 putative PBP binding loops; other site 357348015738 ABC-ATPase subunit interface; other site 357348015739 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 357348015740 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 357348015741 dimer interface [polypeptide binding]; other site 357348015742 conserved gate region; other site 357348015743 putative PBP binding loops; other site 357348015744 ABC-ATPase subunit interface; other site 357348015745 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 357348015746 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 357348015747 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 357348015748 Transcriptional regulators [Transcription]; Region: PurR; COG1609 357348015749 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 357348015750 DNA binding site [nucleotide binding] 357348015751 domain linker motif; other site 357348015752 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 357348015753 dimerization interface [polypeptide binding]; other site 357348015754 ligand binding site [chemical binding]; other site 357348015755 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 357348015756 RHS Repeat; Region: RHS_repeat; cl11982 357348015757 RHS Repeat; Region: RHS_repeat; cl11982 357348015758 RHS Repeat; Region: RHS_repeat; cl11982 357348015759 RHS Repeat; Region: RHS_repeat; cl11982 357348015760 RHS Repeat; Region: RHS_repeat; cl11982 357348015761 RHS Repeat; Region: RHS_repeat; cl11982 357348015762 Domain of Unknown Function (DUF746); Region: DUF746; pfam05344 357348015763 Domain of Unknown Function (DUF746); Region: DUF746; pfam05344 357348015764 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 357348015765 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 357348015766 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 357348015767 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 357348015768 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 357348015769 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 357348015770 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 357348015771 Walker A motif; other site 357348015772 ATP binding site [chemical binding]; other site 357348015773 Walker B motif; other site 357348015774 arginine finger; other site 357348015775 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 357348015776 Walker A motif; other site 357348015777 ATP binding site [chemical binding]; other site 357348015778 Walker B motif; other site 357348015779 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 357348015780 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 357348015781 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 357348015782 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 357348015783 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 357348015784 Protein of unknown function (DUF796); Region: DUF796; cl01226 357348015785 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 357348015786 Protein of unknown function (DUF877); Region: DUF877; pfam05943 357348015787 Protein of unknown function (DUF770); Region: DUF770; cl01402 357348015788 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 357348015789 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 357348015790 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 357348015791 Catalytic domain of Protein Kinases; Region: PKc; cd00180 357348015792 active site 357348015793 ATP binding site [chemical binding]; other site 357348015794 substrate binding site [chemical binding]; other site 357348015795 activation loop (A-loop); other site 357348015796 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 357348015797 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 357348015798 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 357348015799 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 357348015800 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 357348015801 hypothetical protein; Provisional; Region: PRK07033 357348015802 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 357348015803 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 357348015804 ligand binding site [chemical binding]; other site 357348015805 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 357348015806 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 357348015807 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 357348015808 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 357348015809 phosphopeptide binding site; other site 357348015810 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 357348015811 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 357348015812 hypothetical protein; Provisional; Region: PRK07538 357348015813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015814 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 357348015815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015816 NAD(P) binding site [chemical binding]; other site 357348015817 active site 357348015818 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 357348015819 Helix-turn-helix domains; Region: HTH; cl00088 357348015820 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 357348015821 dimerization interface [polypeptide binding]; other site 357348015822 substrate binding pocket [chemical binding]; other site 357348015823 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 357348015824 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348015825 catalytic residue [active] 357348015826 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 357348015827 Helix-turn-helix domains; Region: HTH; cl00088 357348015828 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 357348015829 dimerization interface [polypeptide binding]; other site 357348015830 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 357348015831 dimerization interface [polypeptide binding]; other site 357348015832 putative DNA binding site [nucleotide binding]; other site 357348015833 putative Zn2+ binding site [ion binding]; other site 357348015834 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 357348015835 active site residue [active] 357348015836 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 357348015837 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 357348015838 Major Facilitator Superfamily; Region: MFS_1; pfam07690 357348015839 putative substrate translocation pore; other site 357348015840 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 357348015841 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 357348015842 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348015843 catalytic residue [active] 357348015844 metabolite-proton symporter; Region: 2A0106; TIGR00883 357348015845 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 357348015846 putative substrate translocation pore; other site 357348015847 Helix-turn-helix domains; Region: HTH; cl00088 357348015848 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 357348015849 dimerization interface [polypeptide binding]; other site 357348015850 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 357348015851 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 357348015852 phosphate binding site [ion binding]; other site 357348015853 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 357348015854 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 357348015855 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348015856 Helix-turn-helix domains; Region: HTH; cl00088 357348015857 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348015858 indole acetimide hydrolase; Validated; Region: PRK07488 357348015859 Amidase; Region: Amidase; cl11426 357348015860 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 357348015861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348015862 CoA-ligase; Region: Ligase_CoA; cl02894 357348015863 ATP-grasp domain; Region: ATP-grasp_4; cl03087 357348015864 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 357348015865 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348015866 H-NS histone family; Region: Histone_HNS; pfam00816 357348015867 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 357348015868 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 357348015869 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 357348015870 Walker B motif; other site 357348015871 arginine finger; other site 357348015872 Helix-turn-helix domains; Region: HTH; cl00088 357348015873 Citrate transporter; Region: CitMHS; pfam03600 357348015874 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 357348015875 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 357348015876 active site residue [active] 357348015877 outer membrane porin, OprD family; Region: OprD; pfam03573 357348015878 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 357348015879 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 357348015880 Walker A/P-loop; other site 357348015881 ATP binding site [chemical binding]; other site 357348015882 Q-loop/lid; other site 357348015883 ABC transporter signature motif; other site 357348015884 Walker B; other site 357348015885 D-loop; other site 357348015886 H-loop/switch region; other site 357348015887 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 357348015888 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 357348015889 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 357348015890 Walker A/P-loop; other site 357348015891 ATP binding site [chemical binding]; other site 357348015892 Q-loop/lid; other site 357348015893 ABC transporter signature motif; other site 357348015894 Walker B; other site 357348015895 D-loop; other site 357348015896 H-loop/switch region; other site 357348015897 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 357348015898 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 357348015899 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 357348015900 dimer interface [polypeptide binding]; other site 357348015901 conserved gate region; other site 357348015902 putative PBP binding loops; other site 357348015903 ABC-ATPase subunit interface; other site 357348015904 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 357348015905 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 357348015906 dimer interface [polypeptide binding]; other site 357348015907 conserved gate region; other site 357348015908 putative PBP binding loops; other site 357348015909 ABC-ATPase subunit interface; other site 357348015910 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 357348015911 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 357348015912 peptide binding site [polypeptide binding]; other site 357348015913 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 357348015914 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 357348015915 non-specific DNA binding site [nucleotide binding]; other site 357348015916 salt bridge; other site 357348015917 sequence-specific DNA binding site [nucleotide binding]; other site 357348015918 Cupin domain; Region: Cupin_2; cl09118 357348015919 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 357348015920 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 357348015921 putative substrate translocation pore; other site 357348015922 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 357348015923 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 357348015924 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 357348015925 Helix-turn-helix domains; Region: HTH; cl00088 357348015926 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 357348015927 substrate binding pocket [chemical binding]; other site 357348015928 dimerization interface [polypeptide binding]; other site 357348015929 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 357348015930 CoA-transferase family III; Region: CoA_transf_3; pfam02515 357348015931 Transcriptional regulator [Transcription]; Region: IclR; COG1414 357348015932 Helix-turn-helix domains; Region: HTH; cl00088 357348015933 Bacterial transcriptional regulator; Region: IclR; pfam01614 357348015934 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 357348015935 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348015936 trimer interface [polypeptide binding]; other site 357348015937 eyelet of channel; other site 357348015938 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 357348015939 OpgC protein; Region: OpgC_C; cl00792 357348015940 Predicted permeases [General function prediction only]; Region: RarD; COG2962 357348015941 Acylphosphatase; Region: Acylphosphatase; cl00551 357348015942 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 357348015943 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 357348015944 putative NADP binding site [chemical binding]; other site 357348015945 putative substrate binding site [chemical binding]; other site 357348015946 active site 357348015947 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 357348015948 active site 357348015949 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 357348015950 LytB protein; Region: LYTB; cl00507 357348015951 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 357348015952 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 357348015953 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 357348015954 FeS/SAM binding site; other site 357348015955 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 357348015956 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 357348015957 aminotransferase; Validated; Region: PRK07046 357348015958 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 357348015959 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 357348015960 catalytic residue [active] 357348015961 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 357348015962 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 357348015963 sequence-specific DNA binding site [nucleotide binding]; other site 357348015964 salt bridge; other site 357348015965 Protein of unknown function (DUF466); Region: DUF466; cl01082 357348015966 carbon starvation protein A; Provisional; Region: PRK15015 357348015967 Carbon starvation protein CstA; Region: CstA; pfam02554 357348015968 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 357348015969 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348015970 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 357348015971 Uncharacterized conserved protein [Function unknown]; Region: COG5476 357348015972 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 357348015973 MlrC C-terminus; Region: MlrC_C; pfam07171 357348015974 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348015975 Helix-turn-helix domains; Region: HTH; cl00088 357348015976 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 357348015977 dimerization interface [polypeptide binding]; other site 357348015978 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 357348015979 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 357348015980 metal binding site [ion binding]; metal-binding site 357348015981 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 357348015982 GtrA-like protein; Region: GtrA; cl00971 357348015983 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 357348015984 S-adenosylmethionine binding site [chemical binding]; other site 357348015985 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 357348015986 Ligand binding site; other site 357348015987 Putative Catalytic site; other site 357348015988 DXD motif; other site 357348015989 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 357348015990 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 357348015991 Flp/Fap pilin component; Region: Flp_Fap; cl01585 357348015992 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 357348015993 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 357348015994 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348015995 active site 357348015996 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348015997 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 357348015998 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 357348015999 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 357348016000 TadE-like protein; Region: TadE; cl10688 357348016001 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 357348016002 TadE-like protein; Region: TadE; cl10688 357348016003 TadE-like protein; Region: TadE; cl10688 357348016004 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 357348016005 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 357348016006 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 357348016007 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 357348016008 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 357348016009 ATP binding site [chemical binding]; other site 357348016010 Walker A motif; other site 357348016011 hexamer interface [polypeptide binding]; other site 357348016012 Walker B motif; other site 357348016013 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 357348016014 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348016015 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 357348016016 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 357348016017 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 357348016018 putative DNA binding site [nucleotide binding]; other site 357348016019 putative Zn2+ binding site [ion binding]; other site 357348016020 AsnC family; Region: AsnC_trans_reg; pfam01037 357348016021 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 357348016022 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 357348016023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348016024 homodimer interface [polypeptide binding]; other site 357348016025 catalytic residue [active] 357348016026 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 357348016027 homotrimer interaction site [polypeptide binding]; other site 357348016028 putative active site [active] 357348016029 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348016030 trimer interface [polypeptide binding]; other site 357348016031 eyelet of channel; other site 357348016032 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 357348016033 Transcriptional regulators [Transcription]; Region: FadR; COG2186 357348016034 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 357348016035 DNA-binding site [nucleotide binding]; DNA binding site 357348016036 Uncharacterized conserved protein [Function unknown]; Region: COG5476 357348016037 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 357348016038 MlrC C-terminus; Region: MlrC_C; pfam07171 357348016039 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 357348016040 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 357348016041 putative substrate translocation pore; other site 357348016042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348016043 Helix-turn-helix domains; Region: HTH; cl00088 357348016044 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 357348016045 dimerization interface [polypeptide binding]; other site 357348016046 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 357348016047 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 357348016048 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 357348016049 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 357348016050 active site 357348016051 DNA binding site [nucleotide binding] 357348016052 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 357348016053 DNA binding site [nucleotide binding] 357348016054 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 357348016055 nucleotide binding site [chemical binding]; other site 357348016056 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 357348016057 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 357348016058 putative DNA binding site [nucleotide binding]; other site 357348016059 putative homodimer interface [polypeptide binding]; other site 357348016060 Protein of unknown function (DUF421); Region: DUF421; cl00990 357348016061 hydroperoxidase II; Provisional; Region: katE; PRK11249 357348016062 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 357348016063 tetramer interface [polypeptide binding]; other site 357348016064 heme binding pocket [chemical binding]; other site 357348016065 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 357348016066 domain interactions; other site 357348016067 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 357348016068 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 357348016069 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 357348016070 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 357348016071 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 357348016072 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 357348016073 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 357348016074 dimanganese center [ion binding]; other site 357348016075 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 357348016076 dinuclear metal binding motif [ion binding]; other site 357348016077 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 357348016078 MltA-interacting protein MipA; Region: MipA; cl01504 357348016079 FOG: CBS domain [General function prediction only]; Region: COG0517 357348016080 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_9; cd04622 357348016081 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 357348016082 Response regulator receiver domain; Region: Response_reg; pfam00072 357348016083 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 357348016084 active site 357348016085 phosphorylation site [posttranslational modification] 357348016086 intermolecular recognition site; other site 357348016087 dimerization interface [polypeptide binding]; other site 357348016088 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 357348016089 Fe-S cluster binding site [ion binding]; other site 357348016090 active site 357348016091 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 357348016092 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 357348016093 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 357348016094 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 357348016095 NAD binding site [chemical binding]; other site 357348016096 catalytic Zn binding site [ion binding]; other site 357348016097 structural Zn binding site [ion binding]; other site 357348016098 Domain of unknown function (DUF305); Region: DUF305; cl15795 357348016099 short chain dehydrogenase; Provisional; Region: PRK06701 357348016100 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 357348016101 NAD binding site [chemical binding]; other site 357348016102 metal binding site [ion binding]; metal-binding site 357348016103 active site 357348016104 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 357348016105 short chain dehydrogenase; Provisional; Region: PRK07109 357348016106 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 357348016107 putative NAD(P) binding site [chemical binding]; other site 357348016108 active site 357348016109 BON domain; Region: BON; cl02771 357348016110 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 357348016111 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 357348016112 putative ADP-binding pocket [chemical binding]; other site 357348016113 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 357348016114 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 357348016115 NAD binding site [chemical binding]; other site 357348016116 putative substrate binding site 2 [chemical binding]; other site 357348016117 putative substrate binding site 1 [chemical binding]; other site 357348016118 active site 357348016119 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 357348016120 PAS domain; Region: PAS_9; pfam13426 357348016121 putative active site [active] 357348016122 heme pocket [chemical binding]; other site 357348016123 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 357348016124 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 357348016125 putative active site [active] 357348016126 heme pocket [chemical binding]; other site 357348016127 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 357348016128 dimer interface [polypeptide binding]; other site 357348016129 phosphorylation site [posttranslational modification] 357348016130 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 357348016131 ATP binding site [chemical binding]; other site 357348016132 Mg2+ binding site [ion binding]; other site 357348016133 G-X-G motif; other site 357348016134 Response regulator receiver domain; Region: Response_reg; pfam00072 357348016135 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 357348016136 active site 357348016137 phosphorylation site [posttranslational modification] 357348016138 intermolecular recognition site; other site 357348016139 dimerization interface [polypeptide binding]; other site 357348016140 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 357348016141 active site 357348016142 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 357348016143 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 357348016144 active site 357348016145 phosphorylation site [posttranslational modification] 357348016146 intermolecular recognition site; other site 357348016147 dimerization interface [polypeptide binding]; other site 357348016148 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 357348016149 Walker A motif; other site 357348016150 ATP binding site [chemical binding]; other site 357348016151 Walker B motif; other site 357348016152 arginine finger; other site 357348016153 Helix-turn-helix domains; Region: HTH; cl00088 357348016154 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 357348016155 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 357348016156 Walker A motif; other site 357348016157 ATP binding site [chemical binding]; other site 357348016158 Walker B motif; other site 357348016159 arginine finger; other site 357348016160 Helix-turn-helix domains; Region: HTH; cl00088 357348016161 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 357348016162 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 357348016163 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 357348016164 putative active site [active] 357348016165 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 357348016166 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 357348016167 active site 357348016168 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 357348016169 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 357348016170 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 357348016171 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 357348016172 putative active site [active] 357348016173 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 357348016174 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 357348016175 active site 357348016176 motif I; other site 357348016177 motif II; other site 357348016178 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 357348016179 classical (c) SDRs; Region: SDR_c; cd05233 357348016180 NAD(P) binding site [chemical binding]; other site 357348016181 active site 357348016182 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 357348016183 Transposase; Region: DDE_Tnp_ISL3; pfam01610 357348016184 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 357348016185 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 357348016186 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 357348016187 Response regulator receiver domain; Region: Response_reg; pfam00072 357348016188 BON domain; Region: BON; cl02771 357348016189 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 357348016190 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 357348016191 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 357348016192 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 357348016193 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 357348016194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 357348016195 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 357348016196 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 357348016197 active site 357348016198 non-prolyl cis peptide bond; other site 357348016199 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 357348016200 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 357348016201 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 357348016202 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 357348016203 putative substrate translocation pore; other site 357348016204 Flavin Reductases; Region: FlaRed; cl00801 357348016205 Autoinducer binding domain; Region: Autoind_bind; pfam03472 357348016206 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 357348016207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348016208 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 357348016209 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 357348016210 E3 interaction surface; other site 357348016211 lipoyl attachment site [posttranslational modification]; other site 357348016212 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 357348016213 e3 binding domain; Region: E3_binding; pfam02817 357348016214 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 357348016215 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 357348016216 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 357348016217 alpha subunit interface [polypeptide binding]; other site 357348016218 TPP binding site [chemical binding]; other site 357348016219 heterodimer interface [polypeptide binding]; other site 357348016220 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 357348016221 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 357348016222 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 357348016223 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 357348016224 tetramer interface [polypeptide binding]; other site 357348016225 TPP-binding site [chemical binding]; other site 357348016226 heterodimer interface [polypeptide binding]; other site 357348016227 phosphorylation loop region [posttranslational modification] 357348016228 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 357348016229 putative hydrophobic ligand binding site [chemical binding]; other site 357348016230 protein interface [polypeptide binding]; other site 357348016231 gate; other site 357348016232 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 357348016233 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 357348016234 hydrophobic ligand binding site; other site 357348016235 Transcriptional regulator [Transcription]; Region: LysR; COG0583 357348016236 Helix-turn-helix domains; Region: HTH; cl00088 357348016237 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 357348016238 substrate binding pocket [chemical binding]; other site 357348016239 dimerization interface [polypeptide binding]; other site 357348016240 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 357348016241 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 357348016242 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 357348016243 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 357348016244 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 357348016245 nucleophile elbow; other site 357348016246 Patatin phospholipase; Region: DUF3734; pfam12536 357348016247 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 357348016248 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 357348016249 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 357348016250 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 357348016251 active site 357348016252 dimer interface [polypeptide binding]; other site 357348016253 effector binding site; other site 357348016254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 357348016255 AAA domain; Region: AAA_33; pfam13671 357348016256 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 357348016257 FMN binding site [chemical binding]; other site 357348016258 dimer interface [polypeptide binding]; other site 357348016259 Sulfate transporter family; Region: Sulfate_transp; cl15842 357348016260 high affinity sulphate transporter 1; Region: sulP; TIGR00815 357348016261 Sulfate transporter family; Region: Sulfate_transp; cl15842 357348016262 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 357348016263 FOG: CBS domain [General function prediction only]; Region: COG0517 357348016264 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_9; cd04622 357348016265 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 357348016266 putative FMN binding site [chemical binding]; other site 357348016267 NADPH bind site [chemical binding]; other site 357348016268 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 357348016269 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 357348016270 putative dimer interface [polypeptide binding]; other site 357348016271 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348016272 trimer interface [polypeptide binding]; other site 357348016273 eyelet of channel; other site 357348016274 putative acyl-CoA synthetase; Provisional; Region: PRK06018 357348016275 AMP-binding enzyme; Region: AMP-binding; cl15778 357348016276 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 357348016277 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 357348016278 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348016279 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 357348016280 DNA binding residues [nucleotide binding] 357348016281 dimerization interface [polypeptide binding]; other site 357348016282 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 357348016283 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 357348016284 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 357348016285 NADP binding site [chemical binding]; other site 357348016286 dimer interface [polypeptide binding]; other site 357348016287 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 357348016288 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 357348016289 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 357348016290 D-galactonate transporter; Region: 2A0114; TIGR00893 357348016291 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 357348016292 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 357348016293 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 357348016294 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 357348016295 catalytic residues [active] 357348016296 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 357348016297 molybdopterin cofactor binding site; other site 357348016298 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 357348016299 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_2; cd02783 357348016300 putative molybdopterin cofactor binding site; other site 357348016301 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 357348016302 4Fe-4S binding domain; Region: Fer4; cl02805 357348016303 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 357348016304 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 357348016305 putative active site [active] 357348016306 putative metal binding site [ion binding]; other site 357348016307 Uncharacterized conserved protein [Function unknown]; Region: COG1306 357348016308 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 357348016309 Transglycosylase; Region: Transgly; cl07896 357348016310 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 357348016311 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 357348016312 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 357348016313 catalytic residues [active] 357348016314 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 357348016315 trimer interface [polypeptide binding]; other site 357348016316 eyelet of channel; other site 357348016317 amidase; Provisional; Region: PRK08137 357348016318 Amidase; Region: Amidase; cl11426 357348016319 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 357348016320 putative acetyltransferase YhhY; Provisional; Region: PRK10140 357348016321 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 357348016322 Coenzyme A binding pocket [chemical binding]; other site 357348016323 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 357348016324 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 357348016325 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 357348016326 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 357348016327 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 357348016328 D-loop; other site 357348016329 H-loop/switch region; other site 357348016330 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 357348016331 Cache domain; Region: Cache_2; cl07034 357348016332 Histidine kinase; Region: HisKA_3; pfam07730 357348016333 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 357348016334 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 357348016335 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 357348016336 active site 357348016337 phosphorylation site [posttranslational modification] 357348016338 intermolecular recognition site; other site 357348016339 dimerization interface [polypeptide binding]; other site 357348016340 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 357348016341 DNA binding residues [nucleotide binding] 357348016342 dimerization interface [polypeptide binding]; other site 357348016343 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 357348016344 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 357348016345 PAS domain; Region: PAS_9; pfam13426 357348016346 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 357348016347 putative active site [active] 357348016348 heme pocket [chemical binding]; other site 357348016349 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 357348016350 metal binding site [ion binding]; metal-binding site 357348016351 active site 357348016352 I-site; other site 357348016353 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 357348016354 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 357348016355 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 357348016356 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 357348016357 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 357348016358 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 357348016359 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 357348016360 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 357348016361 FtsX-like permease family; Region: FtsX; cl15850 357348016362 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 357348016363 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 357348016364 Walker A/P-loop; other site 357348016365 ATP binding site [chemical binding]; other site 357348016366 Q-loop/lid; other site 357348016367 ABC transporter signature motif; other site 357348016368 Walker B; other site 357348016369 D-loop; other site 357348016370 H-loop/switch region; other site 357348016371 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 357348016372 Cytochrome P450; Region: p450; pfam00067 357348016373 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 357348016374 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 357348016375 putative NADP binding site [chemical binding]; other site 357348016376 active site 357348016377 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 357348016378 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 357348016379 putative NAD(P) binding site [chemical binding]; other site 357348016380 active site 357348016381 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 357348016382 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 357348016383 active site 357348016384 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 357348016385 active site 357348016386 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 357348016387 putative NADP binding site [chemical binding]; other site 357348016388 active site 357348016389 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 357348016390 Acyl transferase domain; Region: Acyl_transf_1; cl08282 357348016391 Phosphopantetheine attachment site; Region: PP-binding; cl09936 357348016392 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 357348016393 VacJ like lipoprotein; Region: VacJ; cl01073 357348016394 hypothetical protein; Provisional; Region: PRK07483 357348016395 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 357348016396 inhibitor-cofactor binding pocket; inhibition site 357348016397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 357348016398 catalytic residue [active] 357348016399 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 357348016400 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 357348016401 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 357348016402 Walker A/P-loop; other site 357348016403 ATP binding site [chemical binding]; other site 357348016404 Q-loop/lid; other site 357348016405 ABC transporter signature motif; other site 357348016406 Walker B; other site 357348016407 D-loop; other site 357348016408 H-loop/switch region; other site 357348016409 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 357348016410 dimer interface [polypeptide binding]; other site 357348016411 conserved gate region; other site 357348016412 putative PBP binding loops; other site 357348016413 ABC-ATPase subunit interface; other site 357348016414 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 357348016415 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 357348016416 substrate binding pocket [chemical binding]; other site 357348016417 membrane-bound complex binding site; other site 357348016418 hinge residues; other site 357348016419 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 357348016420 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 357348016421 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 357348016422 Active site cavity [active] 357348016423 catalytic acid [active] 357348016424 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 357348016425 active site lid residues [active] 357348016426 substrate binding pocket [chemical binding]; other site 357348016427 catalytic residues [active] 357348016428 substrate-Mg2+ binding site; other site 357348016429 aspartate-rich region 1; other site 357348016430 aspartate-rich region 2; other site 357348016431 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 357348016432 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 357348016433 PAS fold; Region: PAS_4; pfam08448 357348016434 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 357348016435 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 357348016436 metal binding site [ion binding]; metal-binding site 357348016437 active site 357348016438 I-site; other site 357348016439 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 357348016440 Response regulator receiver domain; Region: Response_reg; pfam00072 357348016441 active site 357348016442 phosphorylation site [posttranslational modification] 357348016443 intermolecular recognition site; other site 357348016444 dimerization interface [polypeptide binding]; other site 357348016445 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 357348016446 dimer interface [polypeptide binding]; other site 357348016447 phosphorylation site [posttranslational modification] 357348016448 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 357348016449 ATP binding site [chemical binding]; other site 357348016450 Mg2+ binding site [ion binding]; other site 357348016451 G-X-G motif; other site 357348016452 Response regulator receiver domain; Region: Response_reg; pfam00072 357348016453 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 357348016454 active site 357348016455 phosphorylation site [posttranslational modification] 357348016456 intermolecular recognition site; other site 357348016457 dimerization interface [polypeptide binding]; other site 357348016458 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 357348016459 RNA polymerase sigma factor; Provisional; Region: PRK12545 357348016460 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 357348016461 Putative zinc-finger; Region: zf-HC2; cl15806 357348016462 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 357348016463 ArsC family; Region: ArsC; pfam03960 357348016464 catalytic residues [active] 357348016465 ParA-like protein; Provisional; Region: PHA02518 357348016466 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 357348016467 P-loop; other site 357348016468 Magnesium ion binding site [ion binding]; other site 357348016469 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 357348016470 ParB-like nuclease domain; Region: ParBc; cl02129 357348016471 Initiator Replication protein; Region: Rep_3; cl03080